https://launchpad.net/ubuntu/+source/ariba/2.14.6+ds-3build1/+build/23248860 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-070 5.4.0-104-generic #118-Ubuntu SMP Wed Mar 2 19:03:41 UTC 2022 aarch64 Buildd toolchain package versions: launchpad-buildd_209~536~ubuntu20.04.1 python3-lpbuildd_209~536~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.2 dpkg-dev_1.19.7ubuntu3 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 17 Mar 10:18:14 ntpdate[1749]: adjust time server 10.211.37.1 offset 0.001538 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-23248860 --image-type chroot /home/buildd/filecache-default/d7d0133902b8cc1df688a841d4b96e994eeac2e0 Creating target for build PACKAGEBUILD-23248860 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-23248860 Starting target for build PACKAGEBUILD-23248860 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-23248860 'deb http://ftpmaster.internal/ubuntu jammy main universe' 'deb http://ftpmaster.internal/ubuntu jammy-security main universe' 'deb http://ftpmaster.internal/ubuntu jammy-updates main universe' 'deb http://ftpmaster.internal/ubuntu jammy-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-23248860 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-23248860 Updating target for build PACKAGEBUILD-23248860 Get:1 http://ftpmaster.internal/ubuntu jammy InRelease [270 kB] Get:2 http://ftpmaster.internal/ubuntu jammy-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-updates InRelease [90.7 kB] Get:4 http://ftpmaster.internal/ubuntu jammy-proposed InRelease [121 kB] Get:5 http://ftpmaster.internal/ubuntu jammy/main arm64 Packages [1383 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main Translation-en [514 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/universe arm64 Packages [13.4 MB] Get:8 http://ftpmaster.internal/ubuntu jammy/universe Translation-en [5644 kB] Get:9 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 Packages [73.5 kB] Get:10 http://ftpmaster.internal/ubuntu jammy-proposed/main Translation-en [24.2 kB] Get:11 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 Packages [384 kB] Get:12 http://ftpmaster.internal/ubuntu jammy-proposed/universe Translation-en [170 kB] Fetched 22.2 MB in 8s (2614 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libperl5.32 libssl1.1 perl-modules-5.32 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libsemanage1* The following NEW packages will be installed: gcc-12-base libperl5.34 libsemanage2 libsepol2 libssl3 perl-modules-5.34 The following packages will be upgraded: apt base-files bash binutils binutils-aarch64-linux-gnu binutils-common bsdutils bzip2 ca-certificates coreutils cpp-11 dash debconf debianutils dpkg dpkg-dev e2fsprogs fakeroot g++-11 gcc-11 gcc-11-base gpg gpg-agent gpgconf gpgv grep init init-system-helpers libacl1 libapparmor1 libapt-pkg6.0 libargon2-1 libasan6 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfakeroot libffi8 libgcc-11-dev libgcc-s1 libgcrypt20 libgdbm-compat4 libgdbm6 libgmp10 libgnutls30 libgomp1 libgpg-error0 libgssapi-krb5-2 libhwasan0 libidn2-0 libip4tc2 libisl23 libitm1 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblsan0 libmount1 libmpc3 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libprocps8 libreadline8 libseccomp2 libselinux1 libsemanage-common libsmartcols1 libsqlite3-0 libss2 libstdc++-11-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libxxhash0 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mawk mount ncurses-base ncurses-bin openssl passwd perl perl-base pkgbinarymangler procps readline-common sed sensible-utils systemd systemd-sysv systemd-timesyncd sysvinit-utils tzdata usrmerge util-linux zlib1g 136 upgraded, 6 newly installed, 1 to remove and 0 not upgraded. Need to get 101 MB of archives. After this operation, 332 MB disk space will be freed. Get:1 http://ftpmaster.internal/ubuntu jammy/main arm64 libcrypt-dev arm64 1:4.4.27-1 [119 kB] Get:2 http://ftpmaster.internal/ubuntu jammy/main arm64 libc6-dev arm64 2.35-0ubuntu3 [1544 kB] Get:3 http://ftpmaster.internal/ubuntu jammy/main arm64 libc-dev-bin arm64 2.35-0ubuntu3 [19.6 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main arm64 libaudit-common all 1:3.0.7-1 [4782 B] Get:5 http://ftpmaster.internal/ubuntu jammy/main arm64 libcap-ng0 arm64 0.7.9-2.2build3 [11.2 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main arm64 libaudit1 arm64 1:3.0.7-1 [46.2 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main arm64 libc6 arm64 2.35-0ubuntu3 [2707 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main arm64 libc-bin arm64 2.35-0ubuntu3 [600 kB] Get:9 http://ftpmaster.internal/ubuntu jammy/main arm64 perl-modules-5.34 all 5.34.0-3ubuntu1 [2975 kB] Get:10 http://ftpmaster.internal/ubuntu jammy/main arm64 libperl5.34 arm64 5.34.0-3ubuntu1 [4700 kB] Get:11 http://ftpmaster.internal/ubuntu jammy/main arm64 perl arm64 5.34.0-3ubuntu1 [232 kB] Get:12 http://ftpmaster.internal/ubuntu jammy/main arm64 perl-base arm64 5.34.0-3ubuntu1 [1707 kB] Get:13 http://ftpmaster.internal/ubuntu jammy/main arm64 bzip2 arm64 1.0.8-5 [34.5 kB] Get:14 http://ftpmaster.internal/ubuntu jammy/main arm64 libbz2-1.0 arm64 1.0.8-5 [36.0 kB] Get:15 http://ftpmaster.internal/ubuntu jammy/main arm64 libgdbm6 arm64 1.23-1 [34.1 kB] Get:16 http://ftpmaster.internal/ubuntu jammy/main arm64 libgdbm-compat4 arm64 1.23-1 [6294 B] Get:17 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 zlib1g arm64 1:1.2.11.dfsg-2ubuntu8 [56.7 kB] Get:18 http://ftpmaster.internal/ubuntu jammy/main arm64 debconf all 1.5.79ubuntu1 [126 kB] Get:19 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam0g arm64 1.4.0-11ubuntu1 [60.8 kB] Get:20 http://ftpmaster.internal/ubuntu jammy/main arm64 libcrypt1 arm64 1:4.4.27-1 [86.8 kB] Get:21 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 linux-libc-dev arm64 5.15.0-23.23 [1299 kB] Get:22 http://ftpmaster.internal/ubuntu jammy/main arm64 gcc-12-base arm64 12-20220313-1ubuntu1 [18.9 kB] Get:23 http://ftpmaster.internal/ubuntu jammy/main arm64 libgcc-s1 arm64 12-20220313-1ubuntu1 [39.7 kB] Get:24 http://ftpmaster.internal/ubuntu jammy/main arm64 base-files arm64 12ubuntu2 [63.2 kB] Get:25 http://ftpmaster.internal/ubuntu jammy/main arm64 debianutils arm64 5.5-1ubuntu1 [106 kB] Get:26 http://ftpmaster.internal/ubuntu jammy/main arm64 bash arm64 5.1-6ubuntu1 [762 kB] Get:27 http://ftpmaster.internal/ubuntu jammy/main arm64 bsdutils arm64 1:2.37.2-4ubuntu3 [84.8 kB] Get:28 http://ftpmaster.internal/ubuntu jammy/main arm64 coreutils arm64 8.32-4.1ubuntu1 [1398 kB] Get:29 http://ftpmaster.internal/ubuntu jammy/main arm64 libgpg-error0 arm64 1.43-3 [69.4 kB] Get:30 http://ftpmaster.internal/ubuntu jammy/main arm64 libgcrypt20 arm64 1.9.4-3ubuntu2 [456 kB] Get:31 http://ftpmaster.internal/ubuntu jammy/main arm64 libstdc++6 arm64 12-20220313-1ubuntu1 [666 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main arm64 libssl3 arm64 3.0.1-0ubuntu1 [1767 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main arm64 libargon2-1 arm64 0~20171227-0.3 [18.6 kB] Get:34 http://ftpmaster.internal/ubuntu jammy/main arm64 libblkid1 arm64 2.37.2-4ubuntu3 [103 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main arm64 libpcre2-8-0 arm64 10.39-3 [201 kB] Get:36 http://ftpmaster.internal/ubuntu jammy/main arm64 libselinux1 arm64 3.3-1build1 [74.3 kB] Get:37 http://ftpmaster.internal/ubuntu jammy/main arm64 libudev1 arm64 249.11-0ubuntu1 [74.8 kB] Get:38 http://ftpmaster.internal/ubuntu jammy/main arm64 libdevmapper1.02.1 arm64 2:1.02.175-2.1ubuntu4 [129 kB] Get:39 http://ftpmaster.internal/ubuntu jammy/main arm64 libuuid1 arm64 2.37.2-4ubuntu3 [24.1 kB] Get:40 http://ftpmaster.internal/ubuntu jammy/main arm64 libcryptsetup12 arm64 2:2.4.3-1ubuntu1 [208 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main arm64 libgmp10 arm64 2:6.2.1+dfsg-3ubuntu1 [240 kB] Get:42 http://ftpmaster.internal/ubuntu jammy/main arm64 libunistring2 arm64 1.0-1 [544 kB] Get:43 http://ftpmaster.internal/ubuntu jammy/main arm64 libidn2-0 arm64 2.3.2-2 [67.1 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main arm64 libffi8 arm64 3.4.2-4 [21.3 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main arm64 libp11-kit0 arm64 0.24.0-6 [231 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main arm64 libtasn1-6 arm64 4.18.0-4 [42.6 kB] Get:47 http://ftpmaster.internal/ubuntu jammy/main arm64 libgnutls30 arm64 3.7.3-4ubuntu1 [923 kB] Get:48 http://ftpmaster.internal/ubuntu jammy/main arm64 systemd-sysv arm64 249.11-0ubuntu1 [10.5 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/main arm64 systemd-timesyncd arm64 249.11-0ubuntu1 [29.9 kB] Get:50 http://ftpmaster.internal/ubuntu jammy/main arm64 libacl1 arm64 2.3.1-1 [16.1 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/main arm64 libapparmor1 arm64 3.0.4-2ubuntu2 [38.3 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/main arm64 libip4tc2 arm64 1.8.7-1ubuntu4 [19.8 kB] Get:53 http://ftpmaster.internal/ubuntu jammy/main arm64 libzstd1 arm64 1.4.8+dfsg-3 [311 kB] Get:54 http://ftpmaster.internal/ubuntu jammy/main arm64 libkmod2 arm64 29-1ubuntu1 [46.4 kB] Get:55 http://ftpmaster.internal/ubuntu jammy/main arm64 libmount1 arm64 2.37.2-4ubuntu3 [120 kB] Get:56 http://ftpmaster.internal/ubuntu jammy/main arm64 libseccomp2 arm64 2.5.3-2ubuntu1 [47.7 kB] Get:57 http://ftpmaster.internal/ubuntu jammy/main arm64 login arm64 1:4.8.1-2ubuntu2 [186 kB] Get:58 http://ftpmaster.internal/ubuntu jammy/main arm64 util-linux arm64 2.37.2-4ubuntu3 [1058 kB] Get:59 http://ftpmaster.internal/ubuntu jammy/main arm64 mount arm64 2.37.2-4ubuntu3 [113 kB] Get:60 http://ftpmaster.internal/ubuntu jammy/main arm64 systemd arm64 249.11-0ubuntu1 [4395 kB] Get:61 http://ftpmaster.internal/ubuntu jammy/main arm64 libsystemd0 arm64 249.11-0ubuntu1 [314 kB] Get:62 http://ftpmaster.internal/ubuntu jammy/main arm64 libxxhash0 arm64 0.8.1-1 [20.1 kB] Get:63 http://ftpmaster.internal/ubuntu jammy/main arm64 libapt-pkg6.0 arm64 2.4.1 [865 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main arm64 dpkg arm64 1.21.1ubuntu1 [1235 kB] Get:65 http://ftpmaster.internal/ubuntu jammy/main arm64 dash arm64 0.5.11+git20210903+057cd650a4ed-3 [91.7 kB] Get:66 http://ftpmaster.internal/ubuntu jammy/main arm64 grep arm64 3.7-1 [152 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main arm64 libncurses6 arm64 6.3-2 [106 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main arm64 libncursesw6 arm64 6.3-2 [142 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main arm64 libtinfo6 arm64 6.3-2 [103 kB] Get:70 http://ftpmaster.internal/ubuntu jammy/main arm64 ncurses-bin arm64 6.3-2 [183 kB] Get:71 http://ftpmaster.internal/ubuntu jammy/main arm64 sed arm64 4.8-1ubuntu1 [186 kB] Get:72 http://ftpmaster.internal/ubuntu jammy/main arm64 init-system-helpers all 1.62 [38.5 kB] Get:73 http://ftpmaster.internal/ubuntu jammy/main arm64 ncurses-base all 6.3-2 [20.1 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main arm64 sysvinit-utils arm64 3.01-1ubuntu1 [20.3 kB] Get:75 http://ftpmaster.internal/ubuntu jammy/main arm64 gpgv arm64 2.2.27-3ubuntu1 [133 kB] Get:76 http://ftpmaster.internal/ubuntu jammy/main arm64 apt arm64 2.4.1 [1343 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main arm64 libsepol2 arm64 3.3-1 [274 kB] Get:78 http://ftpmaster.internal/ubuntu jammy/main arm64 libsemanage-common all 3.3-1build1 [10.0 kB] Get:79 http://ftpmaster.internal/ubuntu jammy/main arm64 libsemanage2 arm64 3.3-1build1 [89.4 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main arm64 passwd arm64 1:4.8.1-2ubuntu2 [762 kB] Get:81 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam-modules-bin arm64 1.4.0-11ubuntu1 [38.6 kB] Get:82 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam-modules arm64 1.4.0-11ubuntu1 [278 kB] Get:83 http://ftpmaster.internal/ubuntu jammy/main arm64 logsave arm64 1.46.5-2ubuntu1 [10.5 kB] Get:84 http://ftpmaster.internal/ubuntu jammy/main arm64 libext2fs2 arm64 1.46.5-2ubuntu1 [212 kB] Get:85 http://ftpmaster.internal/ubuntu jammy/main arm64 e2fsprogs arm64 1.46.5-2ubuntu1 [587 kB] Get:86 http://ftpmaster.internal/ubuntu jammy/main arm64 init arm64 1.62 [5412 B] Get:87 http://ftpmaster.internal/ubuntu jammy/main arm64 libattr1 arm64 1:2.5.1-1 [13.3 kB] Get:88 http://ftpmaster.internal/ubuntu jammy/main arm64 libcom-err2 arm64 1.46.5-2ubuntu1 [9728 B] Get:89 http://ftpmaster.internal/ubuntu jammy/main arm64 libdebconfclient0 arm64 0.261ubuntu1 [7080 B] Get:90 http://ftpmaster.internal/ubuntu jammy/main arm64 libk5crypto3 arm64 1.19.2-2 [91.6 kB] Get:91 http://ftpmaster.internal/ubuntu jammy/main arm64 libkrb5support0 arm64 1.19.2-2 [32.3 kB] Get:92 http://ftpmaster.internal/ubuntu jammy/main arm64 libkrb5-3 arm64 1.19.2-2 [356 kB] Get:93 http://ftpmaster.internal/ubuntu jammy/main arm64 libgssapi-krb5-2 arm64 1.19.2-2 [142 kB] Get:94 http://ftpmaster.internal/ubuntu jammy/main arm64 libkeyutils1 arm64 1.6.1-2ubuntu3 [10.1 kB] Get:95 http://ftpmaster.internal/ubuntu jammy/main arm64 libpam-runtime all 1.4.0-11ubuntu1 [40.2 kB] Get:96 http://ftpmaster.internal/ubuntu jammy/main arm64 libsmartcols1 arm64 2.37.2-4ubuntu3 [49.8 kB] Get:97 http://ftpmaster.internal/ubuntu jammy/main arm64 libtsan0 arm64 11.2.0-18ubuntu1 [2235 kB] Get:98 http://ftpmaster.internal/ubuntu jammy/main arm64 libgomp1 arm64 12-20220313-1ubuntu1 [124 kB] Get:99 http://ftpmaster.internal/ubuntu jammy/main arm64 libitm1 arm64 12-20220313-1ubuntu1 [28.4 kB] Get:100 http://ftpmaster.internal/ubuntu jammy/main arm64 libatomic1 arm64 12-20220313-1ubuntu1 [10.8 kB] Get:101 http://ftpmaster.internal/ubuntu jammy/main arm64 libasan6 arm64 11.2.0-18ubuntu1 [2229 kB] Get:102 http://ftpmaster.internal/ubuntu jammy/main arm64 liblsan0 arm64 12-20220313-1ubuntu1 [1034 kB] Get:103 http://ftpmaster.internal/ubuntu jammy/main arm64 libubsan1 arm64 12-20220313-1ubuntu1 [964 kB] Get:104 http://ftpmaster.internal/ubuntu jammy/main arm64 libhwasan0 arm64 12-20220313-1ubuntu1 [1118 kB] Get:105 http://ftpmaster.internal/ubuntu jammy/main arm64 g++-11 arm64 11.2.0-18ubuntu1 [11.1 MB] Get:106 http://ftpmaster.internal/ubuntu jammy/main arm64 gcc-11 arm64 11.2.0-18ubuntu1 [19.5 MB] Get:107 http://ftpmaster.internal/ubuntu jammy/main arm64 libstdc++-11-dev arm64 11.2.0-18ubuntu1 [2070 kB] Get:108 http://ftpmaster.internal/ubuntu jammy/main arm64 libgcc-11-dev arm64 11.2.0-18ubuntu1 [1151 kB] Get:109 http://ftpmaster.internal/ubuntu jammy/main arm64 libisl23 arm64 0.24-2 [690 kB] Get:110 http://ftpmaster.internal/ubuntu jammy/main arm64 libmpc3 arm64 1.2.1-1 [48.1 kB] Get:111 http://ftpmaster.internal/ubuntu jammy/main arm64 libcc1-0 arm64 12-20220313-1ubuntu1 [45.0 kB] Get:112 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libctf0 arm64 2.38-3ubuntu1 [102 kB] Get:113 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libctf-nobfd0 arm64 2.38-3ubuntu1 [106 kB] Get:114 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 binutils-aarch64-linux-gnu arm64 2.38-3ubuntu1 [3225 kB] Get:115 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libbinutils arm64 2.38-3ubuntu1 [825 kB] Get:116 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 binutils arm64 2.38-3ubuntu1 [3156 B] Get:117 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 binutils-common arm64 2.38-3ubuntu1 [221 kB] Get:118 http://ftpmaster.internal/ubuntu jammy/main arm64 cpp-11 arm64 11.2.0-18ubuntu1 [9699 kB] Get:119 http://ftpmaster.internal/ubuntu jammy/main arm64 gcc-11-base arm64 11.2.0-18ubuntu1 [21.1 kB] Get:120 http://ftpmaster.internal/ubuntu jammy/main arm64 libprocps8 arm64 2:3.3.17-6ubuntu2 [35.0 kB] Get:121 http://ftpmaster.internal/ubuntu jammy/main arm64 libss2 arm64 1.46.5-2ubuntu1 [11.9 kB] Get:122 http://ftpmaster.internal/ubuntu jammy/main arm64 mawk arm64 1.3.4.20200120-3 [101 kB] Get:123 http://ftpmaster.internal/ubuntu jammy/main arm64 procps arm64 2:3.3.17-6ubuntu2 [382 kB] Get:124 http://ftpmaster.internal/ubuntu jammy/main arm64 sensible-utils all 0.0.17 [20.1 kB] Get:125 http://ftpmaster.internal/ubuntu jammy/main arm64 usrmerge all 25ubuntu2 [54.7 kB] Get:126 http://ftpmaster.internal/ubuntu jammy/main arm64 openssl arm64 3.0.1-0ubuntu1 [1157 kB] Get:127 http://ftpmaster.internal/ubuntu jammy/main arm64 ca-certificates all 20211016 [148 kB] Get:128 http://ftpmaster.internal/ubuntu jammy/main arm64 readline-common all 8.1.2-1 [53.5 kB] Get:129 http://ftpmaster.internal/ubuntu jammy/main arm64 libreadline8 arm64 8.1.2-1 [153 kB] Get:130 http://ftpmaster.internal/ubuntu jammy/main arm64 libsqlite3-0 arm64 3.37.2-2 [636 kB] Get:131 http://ftpmaster.internal/ubuntu jammy/main arm64 tzdata all 2021e-1ubuntu1 [343 kB] Get:132 http://ftpmaster.internal/ubuntu jammy/main arm64 dpkg-dev all 1.21.1ubuntu1 [922 kB] Get:133 http://ftpmaster.internal/ubuntu jammy/main arm64 libdpkg-perl all 1.21.1ubuntu1 [236 kB] Get:134 http://ftpmaster.internal/ubuntu jammy/main arm64 make arm64 4.3-4.1build1 [177 kB] Get:135 http://ftpmaster.internal/ubuntu jammy/main arm64 lto-disabled-list all 23 [12.5 kB] Get:136 http://ftpmaster.internal/ubuntu jammy/main arm64 libfakeroot arm64 1.28-1ubuntu1 [31.5 kB] Get:137 http://ftpmaster.internal/ubuntu jammy/main arm64 fakeroot arm64 1.28-1ubuntu1 [60.5 kB] Get:138 http://ftpmaster.internal/ubuntu jammy/main arm64 gpg arm64 2.2.27-3ubuntu1 [507 kB] Get:139 http://ftpmaster.internal/ubuntu jammy/main arm64 gpgconf arm64 2.2.27-3ubuntu1 [92.4 kB] Get:140 http://ftpmaster.internal/ubuntu jammy/main arm64 gpg-agent arm64 2.2.27-3ubuntu1 [204 kB] Get:141 http://ftpmaster.internal/ubuntu jammy/main arm64 lockfile-progs arm64 0.1.19 [9778 B] Get:142 http://ftpmaster.internal/ubuntu jammy/main arm64 pkgbinarymangler all 149 [32.4 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 101 MB in 5s (22.0 MB/s) (Reading database ... 13240 files and directories currently installed.) 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Setting up libfakeroot:arm64 (1.28-1ubuntu1) ... Setting up libasan6:arm64 (11.2.0-18ubuntu1) ... Setting up tzdata (2021e-1ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Mar 17 10:19:32 UTC 2022. Universal Time is now: Thu Mar 17 10:19:32 UTC 2022. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.28-1ubuntu1) ... Setting up make (4.3-4.1build1) ... Setting up libncurses6:arm64 (6.3-2) ... Setting up libmpc3:arm64 (1.2.1-1) ... Setting up systemd-timesyncd (249.11-0ubuntu1) ... Setting up lockfile-progs (0.1.19) ... Setting up libatomic1:arm64 (12-20220313-1ubuntu1) ... Setting up usrmerge (25ubuntu2) ... Setting up libss2:arm64 (1.46.5-2ubuntu1) ... Setting up libncursesw6:arm64 (6.3-2) ... Setting up logsave (1.46.5-2ubuntu1) ... Setting up libubsan1:arm64 (12-20220313-1ubuntu1) ... Setting up sensible-utils (0.0.17) ... Setting up libhwasan0:arm64 (12-20220313-1ubuntu1) ... Setting up libcrypt-dev:arm64 (1:4.4.27-1) ... 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Setting up ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 7 added, 8 removed; done. Setting up libgdbm-compat4:arm64 (1.23-1) ... Setting up libgcc-11-dev:arm64 (11.2.0-18ubuntu1) ... Setting up gcc-11 (11.2.0-18ubuntu1) ... Setting up procps (2:3.3.17-6ubuntu2) ... Installing new version of config file /etc/init.d/procps ... Installing new version of config file /etc/sysctl.d/README.sysctl ... Setting up gpgconf (2.2.27-3ubuntu1) ... Setting up libc6-dev:arm64 (2.35-0ubuntu3) ... Setting up gpg (2.2.27-3ubuntu1) ... Setting up libperl5.34:arm64 (5.34.0-3ubuntu1) ... Setting up gpg-agent (2.2.27-3ubuntu1) ... Setting up perl (5.34.0-3ubuntu1) ... Setting up libdpkg-perl (1.21.1ubuntu1) ... Setting up libstdc++-11-dev:arm64 (11.2.0-18ubuntu1) ... Setting up g++-11 (11.2.0-18ubuntu1) ... Setting up dpkg-dev (1.21.1ubuntu1) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... Processing triggers for ca-certificates (20211016) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-23248860 arm64 jammy-proposed -c chroot:build-PACKAGEBUILD-23248860 --arch=arm64 --dist=jammy-proposed --nolog ariba_2.14.6+ds-3build1.dsc Initiating build PACKAGEBUILD-23248860 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-104-generic #118-Ubuntu SMP Wed Mar 2 19:03:41 UTC 2022 aarch64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-arm64-070.buildd +==============================================================================+ | ariba 2.14.6+ds-3build1 (arm64) Thu, 17 Mar 2022 10:19:45 +0000 | +==============================================================================+ Package: ariba Version: 2.14.6+ds-3build1 Source Version: 2.14.6+ds-3build1 Distribution: jammy-proposed Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-23248860/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/ariba-wBxRio/resolver-U6G5B9' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- ariba_2.14.6+ds-3build1.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/ariba-wBxRio/ariba-2.14.6+ds' with '<>' I: NOTICE: Log filtering will replace 'build/ariba-wBxRio' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-biopython, python3-all-dev, python3-dendropy, python3-setuptools, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3-pytest, python3-bs4, python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash, libminimap-dev, libfml-dev (>= 0.1-4~), mummer, fastaq (>= 3.12.0), help2man, asciidoctor, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-biopython, python3-all-dev, python3-dendropy, python3-setuptools, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3-pytest, python3-bs4, python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash, libminimap-dev, libfml-dev (>= 0.1-4~), mummer, fastaq (>= 3.12.0), help2man, asciidoctor, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [540 B] Get:5 copy:/<>/apt_archive ./ Packages [606 B] Fetched 2103 B in 0s (60.9 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libperl5.32 libssl1.1 perl-modules-5.32 systemd-timesyncd Use 'apt autoremove' to remove them. The following additional packages will be installed: asciidoctor autoconf automake autopoint autotools-dev blt bowtie2 bsdextrautils cd-hit debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz fastaq file fontconfig-config fonts-dejavu-core fonts-lyx fonts-urw-base35 gawk gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libcapnp-0.8.0 libcurl3-gnutls libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfml-dev libfml0 libfontconfig1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libgsl27 libgslcblas0 libharfbuzz0b libhts3 libhtscodecs2 libicu70 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblocale-gettext-perl libmagic-mgc libmagic1 libmd0 libminimap-dev libminimap0 libmpdec3 libmurmurhash2 libnghttp2-14 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.9-minimal libpython3.9-stdlib libqhull-r8.0 libraqm0 librtmp1 libruby3.0 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtcl8.6 libtiff5 libtk8.6 libtool libuchardet0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxsimd-dev libxslt1.1 libxss1 libyaml-0-2 m4 mailcap man-db mash media-types mime-support mummer po-debconf python-matplotlib-data python3 python3-all python3-all-dev python3-appdirs python3-attr python3-beniget python3-biopython python3-brotli python3-bs4 python3-cycler python3-dateutil python3-decorator python3-dendropy python3-dev python3-distutils python3-fonttools python3-fs python3-gast python3-importlib-metadata python3-iniconfig python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-pluggy python3-ply python3-py python3-pymummer python3-pyparsing python3-pysam python3-pytest python3-pythran python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-setuptools python3-six python3-soupsieve python3-sympy python3-tk python3-toml python3-tz python3-ufolib2 python3-unicodedata2 python3-zipp python3.10 python3.10-dev python3.10-minimal python3.9 python3.9-minimal rake ruby ruby-asciidoctor ruby-net-telnet ruby-rubygems ruby-xmlrpc ruby3.0 rubygems-integration samtools sgml-base tk8.6-blt2.5 ucf unicode-data w3-dtd-mathml x11-common xml-core zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc blt-demo bowtie2-examples dh-make flit python3-build python3-tomli python3-installer fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gawk-doc gettext-doc libasprintf-dev libgettextpo-dev groff libboost-doc libboost1.74-doc libboost-atomic1.74-dev libboost-chrono1.74-dev libboost-container1.74-dev libboost-context1.74-dev libboost-contract1.74-dev libboost-coroutine1.74-dev libboost-date-time1.74-dev libboost-exception1.74-dev libboost-fiber1.74-dev libboost-filesystem1.74-dev libboost-graph1.74-dev libboost-graph-parallel1.74-dev libboost-iostreams1.74-dev libboost-locale1.74-dev libboost-log1.74-dev libboost-math1.74-dev libboost-mpi1.74-dev libboost-mpi-python1.74-dev libboost-numpy1.74-dev libboost-program-options1.74-dev libboost-python1.74-dev libboost-random1.74-dev libboost-regex1.74-dev libboost-serialization1.74-dev libboost-stacktrace1.74-dev libboost-system1.74-dev libboost-test1.74-dev libboost-thread1.74-dev libboost-timer1.74-dev libboost-type-erasure1.74-dev libboost-wave1.74-dev libboost1.74-tools-dev libmpfrc++-dev libntl-dev libboost-nowide1.74-dev gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libjs-jquery-ui-docs liblcms2-utils tcl8.6 tk8.6 libtool-doc gfortran | fortran95-compiler gcj-jdk libxsimd-doc m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-venv python-attr-doc bwa clustalo clustalw dialign dssp emboss fasttree mafft muscle phylip phyml prank probcons python3-mysqldb python3-mmtf python3-rdflib python3-psycopg2 raxml t-coffee wise python-cycler-doc python-lxml-doc dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python-matplotlib-doc python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-pyqt5 python3-sip python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gfortran python-numpy-doc python-pil-doc python-ply-doc subversion python-pyparsing-doc pdf-viewer python3-egenix-mxtexttools python-reportlab-doc python-scipy-doc python-setuptools-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg python3.10-venv python3.10-doc binfmt-support python3.9-venv python3.9-doc ri ruby-dev bundler cwltool sgml-base-doc docbook-mathml Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs javascript-common libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl python-biopython-doc ncbi-blast+ python3-chardet python3-html5lib python3-olefile python3-pygments zip fonts-lato The following NEW packages will be installed: asciidoctor autoconf automake autopoint autotools-dev blt bowtie2 bsdextrautils cd-hit debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz fastaq file fontconfig-config fonts-dejavu-core fonts-lyx fonts-urw-base35 gawk gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libblas3 libboost-dev libboost1.74-dev libbrotli1 libbsd0 libcapnp-0.8.0 libcurl3-gnutls libdebhelper-perl libdeflate0 libdw1 libedit2 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfml-dev libfml0 libfontconfig1 libfreetype6 libfribidi0 libgfortran5 libglib2.0-0 libgraphite2-3 libgsl27 libgslcblas0 libharfbuzz0b libhts3 libhtscodecs2 libicu70 libimagequant0 libjbig0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore liblapack3 liblbfgsb0 liblcms2-2 libldap-2.5-0 liblocale-gettext-perl libmagic-mgc libmagic1 libmd0 libminimap-dev libminimap0 libmpdec3 libmurmurhash2 libnghttp2-14 libopenblas-dev libopenblas-pthread-dev libopenblas0 libopenblas0-pthread libopenjp2-7 libpipeline1 libpsl5 libpython3-all-dev libpython3-dev libpython3-stdlib libpython3.10 libpython3.10-dev libpython3.10-minimal libpython3.10-stdlib libpython3.9-minimal libpython3.9-stdlib libqhull-r8.0 libraqm0 librtmp1 libruby3.0 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtcl8.6 libtiff5 libtk8.6 libtool libuchardet0 libwebp7 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libxau6 libxcb1 libxdmcp6 libxext6 libxft2 libxml2 libxrender1 libxsimd-dev libxslt1.1 libxss1 libyaml-0-2 m4 mailcap man-db mash media-types mime-support mummer po-debconf python-matplotlib-data python3 python3-all python3-all-dev python3-appdirs python3-attr python3-beniget python3-biopython python3-brotli python3-bs4 python3-cycler python3-dateutil python3-decorator python3-dendropy python3-dev python3-distutils python3-fonttools python3-fs python3-gast python3-importlib-metadata python3-iniconfig python3-kiwisolver python3-lib2to3 python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-more-itertools python3-mpmath python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-pluggy python3-ply python3-py python3-pymummer python3-pyparsing python3-pysam python3-pytest python3-pythran python3-renderpm python3-reportlab python3-reportlab-accel python3-scipy python3-setuptools python3-six python3-soupsieve python3-sympy python3-tk python3-toml python3-tz python3-ufolib2 python3-unicodedata2 python3-zipp python3.10 python3.10-dev python3.10-minimal python3.9 python3.9-minimal rake ruby ruby-asciidoctor ruby-net-telnet ruby-rubygems ruby-xmlrpc ruby3.0 rubygems-integration samtools sbuild-build-depends-main-dummy sgml-base tk8.6-blt2.5 ucf unicode-data w3-dtd-mathml x11-common xml-core zlib1g-dev 0 upgraded, 211 newly installed, 0 to remove and 0 not upgraded. Need to get 139 MB of archives. After this operation, 701 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [830 B] Get:2 http://ftpmaster.internal/ubuntu jammy/main arm64 liblocale-gettext-perl arm64 1.07-4build3 [16.9 kB] Get:3 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 libpython3.10-minimal arm64 3.10.3-1 [806 kB] Get:4 http://ftpmaster.internal/ubuntu jammy/main arm64 libexpat1 arm64 2.4.7-1 [78.1 kB] Get:5 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 python3.10-minimal arm64 3.10.3-1 [2172 kB] Get:6 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-minimal arm64 3.10.1-0ubuntu2 [24.6 kB] Get:7 http://ftpmaster.internal/ubuntu jammy/main arm64 media-types all 6.0.0 [25.6 kB] Get:8 http://ftpmaster.internal/ubuntu jammy/main arm64 mailcap all 3.70+nmu1ubuntu1 [23.8 kB] Get:9 http://ftpmaster.internal/ubuntu jammy/main arm64 mime-support all 3.66 [3696 B] Get:10 http://ftpmaster.internal/ubuntu jammy/main arm64 libmpdec3 arm64 2.5.1-2build1 [89.0 kB] Get:11 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arm64 ucf all 3.0043 [56.1 kB] Get:32 http://ftpmaster.internal/ubuntu jammy/main arm64 bsdextrautils arm64 2.37.2-4ubuntu3 [70.1 kB] Get:33 http://ftpmaster.internal/ubuntu jammy/main arm64 libmagic-mgc arm64 1:5.41-2 [257 kB] Get:34 http://ftpmaster.internal/ubuntu jammy/main arm64 libmagic1 arm64 1:5.41-2 [84.9 kB] Get:35 http://ftpmaster.internal/ubuntu jammy/main arm64 file arm64 1:5.41-2 [21.6 kB] Get:36 http://ftpmaster.internal/ubuntu jammy/main arm64 gettext-base arm64 0.21-4ubuntu3 [35.2 kB] Get:37 http://ftpmaster.internal/ubuntu jammy/main arm64 libuchardet0 arm64 0.0.7-1build1 [76.8 kB] Get:38 http://ftpmaster.internal/ubuntu jammy/main arm64 groff-base arm64 1.22.4-8 [917 kB] Get:39 http://ftpmaster.internal/ubuntu jammy/main arm64 libedit2 arm64 3.1-20210910-1 [95.9 kB] Get:40 http://ftpmaster.internal/ubuntu jammy/main arm64 libpipeline1 arm64 1.5.5-1 [23.2 kB] Get:41 http://ftpmaster.internal/ubuntu jammy/main arm64 libpsl5 arm64 0.21.0-1.2build1 [57.5 kB] Get:42 http://ftpmaster.internal/ubuntu jammy/main arm64 libxau6 arm64 1:1.0.9-1build4 [7638 B] Get:43 http://ftpmaster.internal/ubuntu jammy/main arm64 libxdmcp6 arm64 1:1.1.3-0ubuntu4 [10.9 kB] Get:44 http://ftpmaster.internal/ubuntu jammy/main arm64 libxcb1 arm64 1.14-3ubuntu2 [49.1 kB] Get:45 http://ftpmaster.internal/ubuntu jammy/main arm64 libx11-data all 2:1.7.2-2 [123 kB] Get:46 http://ftpmaster.internal/ubuntu jammy/main arm64 libx11-6 arm64 2:1.7.2-2 [659 kB] Get:47 http://ftpmaster.internal/ubuntu jammy/main arm64 libxext6 arm64 2:1.3.4-1 [31.1 kB] Get:48 http://ftpmaster.internal/ubuntu jammy/main arm64 man-db arm64 2.10.1-1 [1180 kB] Get:49 http://ftpmaster.internal/ubuntu jammy/main arm64 rubygems-integration all 1.18 [5336 B] Get:50 http://ftpmaster.internal/ubuntu jammy/main arm64 rake all 13.0.6-2 [61.7 kB] Get:51 http://ftpmaster.internal/ubuntu jammy/main arm64 ruby-net-telnet all 0.1.1-2 [12.6 kB] Get:52 http://ftpmaster.internal/ubuntu jammy/main arm64 ruby-xmlrpc all 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http://ftpmaster.internal/ubuntu jammy/main arm64 autopoint all 0.21-4ubuntu3 [422 kB] Get:64 http://ftpmaster.internal/ubuntu jammy/main arm64 libtcl8.6 arm64 8.6.12+dfsg-1 [986 kB] Get:65 http://ftpmaster.internal/ubuntu jammy/main arm64 libbrotli1 arm64 1.0.9-2build4 [314 kB] Get:66 http://ftpmaster.internal/ubuntu jammy/main arm64 libfreetype6 arm64 2.11.1+dfsg-1 [383 kB] Get:67 http://ftpmaster.internal/ubuntu jammy/main arm64 fonts-dejavu-core all 2.37-2build1 [1041 kB] Get:68 http://ftpmaster.internal/ubuntu jammy/main arm64 fonts-urw-base35 all 20200910-1 [6367 kB] Get:69 http://ftpmaster.internal/ubuntu jammy/main arm64 fontconfig-config all 2.13.1-4.2ubuntu4 [29.1 kB] Get:70 http://ftpmaster.internal/ubuntu jammy/main arm64 libfontconfig1 arm64 2.13.1-4.2ubuntu4 [135 kB] Get:71 http://ftpmaster.internal/ubuntu jammy/main arm64 libxrender1 arm64 1:0.9.10-1build3 [18.8 kB] Get:72 http://ftpmaster.internal/ubuntu jammy/main arm64 libxft2 arm64 2.3.3-0ubuntu4 [40.5 kB] Get:73 http://ftpmaster.internal/ubuntu jammy/main arm64 x11-common all 1:7.7+23ubuntu1 [23.5 kB] Get:74 http://ftpmaster.internal/ubuntu jammy/main arm64 libxss1 arm64 1:1.2.3-1build1 [8354 B] Get:75 http://ftpmaster.internal/ubuntu jammy/main arm64 libtk8.6 arm64 8.6.12-1 [776 kB] Get:76 http://ftpmaster.internal/ubuntu jammy/main arm64 tk8.6-blt2.5 arm64 2.5.3+dfsg-4.1build1 [625 kB] Get:77 http://ftpmaster.internal/ubuntu jammy/main arm64 blt arm64 2.5.3+dfsg-4.1build1 [4846 B] Get:78 http://ftpmaster.internal/ubuntu jammy/universe arm64 cd-hit arm64 4.8.1-4 [522 kB] Get:79 http://ftpmaster.internal/ubuntu jammy/main arm64 libdebhelper-perl all 13.6ubuntu1 [67.2 kB] Get:80 http://ftpmaster.internal/ubuntu jammy/main arm64 libtool all 2.4.6-15build1 [164 kB] Get:81 http://ftpmaster.internal/ubuntu jammy/main arm64 dh-autoreconf all 20 [16.1 kB] Get:82 http://ftpmaster.internal/ubuntu jammy/main arm64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:83 http://ftpmaster.internal/ubuntu jammy/main arm64 libsub-override-perl all 0.09-2 [9532 B] Get:84 http://ftpmaster.internal/ubuntu jammy/main arm64 libfile-stripnondeterminism-perl all 1.13.0-1 [18.1 kB] Get:85 http://ftpmaster.internal/ubuntu jammy/main arm64 dh-strip-nondeterminism all 1.13.0-1 [5344 B] Get:86 http://ftpmaster.internal/ubuntu jammy/main arm64 libdw1 arm64 0.186-1 [246 kB] Get:87 http://ftpmaster.internal/ubuntu jammy/main arm64 debugedit arm64 1:5.0-4 [46.4 kB] Get:88 http://ftpmaster.internal/ubuntu jammy/main arm64 dwz arm64 0.14-1build1 [102 kB] Get:89 http://ftpmaster.internal/ubuntu jammy/main arm64 gettext arm64 0.21-4ubuntu3 [775 kB] Get:90 http://ftpmaster.internal/ubuntu jammy/main arm64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:91 http://ftpmaster.internal/ubuntu jammy/main arm64 po-debconf all 1.0.21+nmu1 [233 kB] Get:92 http://ftpmaster.internal/ubuntu jammy/main arm64 debhelper all 13.6ubuntu1 [923 kB] Get:93 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 python3-lib2to3 all 3.10.3-0ubuntu2 [76.1 kB] Get:94 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 python3-distutils all 3.10.3-0ubuntu2 [138 kB] Get:95 http://ftpmaster.internal/ubuntu jammy/universe arm64 dh-python all 5.20220215 [104 kB] Get:96 http://ftpmaster.internal/ubuntu jammy/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg2-3ubuntu1 [21.3 kB] Get:97 http://ftpmaster.internal/ubuntu jammy/main arm64 libsasl2-2 arm64 2.1.27+dfsg2-3ubuntu1 [55.6 kB] Get:98 http://ftpmaster.internal/ubuntu jammy/main arm64 libldap-2.5-0 arm64 2.5.11+dfsg-1~exp1ubuntu3 [181 kB] Get:99 http://ftpmaster.internal/ubuntu jammy/main arm64 libnghttp2-14 arm64 1.43.0-1build2 [75.3 kB] Get:100 http://ftpmaster.internal/ubuntu jammy/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2build3 [59.3 kB] Get:101 http://ftpmaster.internal/ubuntu jammy/main arm64 libssh-4 arm64 0.9.6-2 [184 kB] Get:102 http://ftpmaster.internal/ubuntu jammy/main arm64 libcurl3-gnutls arm64 7.81.0-1 [278 kB] Get:103 http://ftpmaster.internal/ubuntu jammy/main arm64 libdeflate0 arm64 1.10-1ubuntu1 [69.2 kB] Get:104 http://ftpmaster.internal/ubuntu jammy/universe arm64 libhtscodecs2 arm64 1.1.1-3 [55.8 kB] Get:105 http://ftpmaster.internal/ubuntu jammy/universe arm64 libhts3 arm64 1.13+ds-2build1 [378 kB] Get:106 http://ftpmaster.internal/ubuntu jammy/universe arm64 samtools arm64 1.13-4 [518 kB] Get:107 http://ftpmaster.internal/ubuntu jammy/universe arm64 fastaq all 3.17.0-4 [48.3 kB] Get:108 http://ftpmaster.internal/ubuntu jammy/universe arm64 fonts-lyx all 2.3.6-1 [159 kB] Get:109 http://ftpmaster.internal/ubuntu jammy/universe arm64 help2man arm64 1.49.1 [186 kB] Get:110 http://ftpmaster.internal/ubuntu jammy/main arm64 libblas3 arm64 3.10.0-2ubuntu1 [141 kB] Get:111 http://ftpmaster.internal/ubuntu jammy/main arm64 libboost1.74-dev arm64 1.74.0-14ubuntu2 [9607 kB] Get:112 http://ftpmaster.internal/ubuntu jammy/main arm64 libboost-dev arm64 1.74.0.3ubuntu6 [3452 B] Get:113 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libpython3.10-dev arm64 3.10.3-1 [4627 kB] Get:142 http://ftpmaster.internal/ubuntu jammy/main arm64 libpython3-dev arm64 3.10.1-0ubuntu2 [7478 B] Get:143 http://ftpmaster.internal/ubuntu jammy/main arm64 libpython3-all-dev arm64 3.10.1-0ubuntu2 [922 B] Get:144 http://ftpmaster.internal/ubuntu jammy/universe arm64 libqhull-r8.0 arm64 2020.2-4 [189 kB] Get:145 http://ftpmaster.internal/ubuntu jammy/main arm64 libraqm0 arm64 0.7.0-4ubuntu1 [11.6 kB] Get:146 http://ftpmaster.internal/ubuntu jammy/main arm64 libjbig0 arm64 2.1-3.1build2 [28.7 kB] Get:147 http://ftpmaster.internal/ubuntu jammy/main arm64 libwebp7 arm64 1.2.2-2 [192 kB] Get:148 http://ftpmaster.internal/ubuntu jammy/main arm64 libtiff5 arm64 4.3.0-6 [179 kB] Get:149 http://ftpmaster.internal/ubuntu jammy/main arm64 libwebpdemux2 arm64 1.2.2-2 [9948 B] Get:150 http://ftpmaster.internal/ubuntu jammy/main arm64 libwebpmux3 arm64 1.2.2-2 [20.6 kB] Get:151 http://ftpmaster.internal/ubuntu jammy/universe arm64 libxsimd-dev arm64 7.6.0-2 [108 kB] Get:152 http://ftpmaster.internal/ubuntu jammy/main arm64 libxslt1.1 arm64 1.1.34-4build1 [161 kB] Get:153 http://ftpmaster.internal/ubuntu jammy/universe arm64 mash arm64 2.3+dfsg-1build2 [147 kB] Get:154 http://ftpmaster.internal/ubuntu jammy/universe arm64 mummer arm64 3.23+dfsg-7 [637 kB] Get:155 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 python-matplotlib-data all 3.5.1-2build1 [2942 kB] Get:156 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-all arm64 3.10.1-0ubuntu2 [916 B] Get:157 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 python3.10-dev arm64 3.10.3-1 [508 kB] Get:158 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-dev arm64 3.10.1-0ubuntu2 [25.9 kB] Get:159 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-all-dev arm64 3.10.1-0ubuntu2 [914 B] Get:160 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-appdirs all 1.4.4-2 [11.4 kB] Get:161 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-attr all 21.2.0-1 [44.0 kB] Get:162 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-gast all 0.5.2-2 [9394 B] Get:163 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-beniget all 0.4.1-2 [9904 B] Get:164 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-numpy arm64 1:1.21.5-1 [5431 kB] Get:165 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-renderpm arm64 3.6.8-1 [61.6 kB] Get:166 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-reportlab-accel arm64 3.6.8-1 [20.4 kB] Get:167 http://ftpmaster.internal/ubuntu jammy-proposed/main arm64 python3-tk arm64 3.10.3-0ubuntu2 [102 kB] Get:168 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-pil.imagetk arm64 9.0.1-1 [9700 B] Get:169 http://ftpmaster.internal/ubuntu jammy/main arm64 libopenjp2-7 arm64 2.4.0-6 [155 kB] Get:170 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-pil arm64 9.0.1-1 [438 kB] Get:171 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-reportlab all 3.6.8-1 [559 kB] Get:172 http://ftpmaster.internal/ubuntu jammy/main arm64 xml-core all 0.18+nmu1 [21.6 kB] Get:173 http://ftpmaster.internal/ubuntu jammy/universe arm64 w3-dtd-mathml all 2.0.0.0-5.1 [57.3 kB] Get:174 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-biopython arm64 1.79+dfsg-2 [1458 kB] Get:175 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-brotli arm64 1.0.9-2build4 [316 kB] Get:176 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-soupsieve all 2.3.1-1 [33.0 kB] Get:177 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-bs4 all 4.10.0-2 [79.1 kB] Get:178 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-cycler all 0.11.0-1 [8156 B] Get:179 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-six all 1.16.0-3 [12.5 kB] Get:180 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-dateutil all 2.8.1-6 [78.4 kB] Get:181 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-decorator all 4.4.2-0ubuntu1 [10.3 kB] Get:182 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-dendropy all 4.5.2-1 [276 kB] Get:183 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-ply all 3.11-5 [47.5 kB] Get:184 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-pythran arm64 0.10.0+ds2-1 [423 kB] Get:185 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 python3-scipy arm64 1.8.0-1exp2 [16.1 MB] Get:186 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-ufolib2 all 0.13.1+dfsg1-1 [32.2 kB] Get:187 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-mpmath all 1.2.1-2 [419 kB] Get:188 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 python3-sympy all 1.9-1 [4312 kB] Get:189 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-tz all 2021.3-1 [33.3 kB] Get:190 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-fs all 2.4.12-1 [84.9 kB] Get:191 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-lxml arm64 4.8.0-1 [1611 kB] Get:192 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-lz4 arm64 3.1.3+dfsg-1build2 [33.7 kB] Get:193 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-unicodedata2 arm64 14.0.0+ds-8 [383 kB] Get:194 http://ftpmaster.internal/ubuntu jammy/universe arm64 unicode-data all 14.0.0-1.1 [8206 kB] Get:195 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 python3-fonttools arm64 4.29.1-2build1 [805 kB] Get:196 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-more-itertools all 8.10.0-2 [47.9 kB] Get:197 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-zipp all 1.0.0-3 [5440 B] Get:198 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-importlib-metadata all 4.6.4-1 [16.2 kB] Get:199 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-iniconfig all 1.1.1-2 [6024 B] Get:200 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-kiwisolver arm64 1.3.2-1 [57.8 kB] Get:201 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-pyparsing all 2.4.7-1 [61.4 kB] Get:202 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-packaging all 21.3-1 [30.7 kB] Get:203 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 python3-matplotlib arm64 3.5.1-2build1 [5771 kB] Get:204 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-pluggy all 0.13.0-7.1 [19.0 kB] Get:205 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-py all 1.10.0-1 [71.9 kB] Get:206 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-pymummer all 0.11.0-2 [9976 B] Get:207 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 python3-pysam arm64 0.17.0+ds-2build1 [1701 kB] Get:208 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-toml all 0.10.2-1 [16.5 kB] Get:209 http://ftpmaster.internal/ubuntu jammy/universe arm64 python3-pytest all 6.2.5-1ubuntu2 [214 kB] Get:210 http://ftpmaster.internal/ubuntu jammy/main arm64 python3-setuptools all 59.6.0-1.2 [339 kB] Get:211 http://ftpmaster.internal/ubuntu jammy-proposed/universe arm64 bowtie2 arm64 2.4.5-1 [1237 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 139 MB in 7s (21.3 MB/s) Selecting previously unselected package liblocale-gettext-perl. 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Unpacking python3-pysam (0.17.0+ds-2build1) ... Selecting previously unselected package python3-toml. Preparing to unpack .../190-python3-toml_0.10.2-1_all.deb ... Unpacking python3-toml (0.10.2-1) ... Selecting previously unselected package python3-pytest. Preparing to unpack .../191-python3-pytest_6.2.5-1ubuntu2_all.deb ... Unpacking python3-pytest (6.2.5-1ubuntu2) ... Selecting previously unselected package python3-setuptools. Preparing to unpack .../192-python3-setuptools_59.6.0-1.2_all.deb ... Unpacking python3-setuptools (59.6.0-1.2) ... Selecting previously unselected package bowtie2. Preparing to unpack .../193-bowtie2_2.4.5-1_arm64.deb ... Unpacking bowtie2 (2.4.5-1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../194-sbuild-build-depends-main-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up cd-hit (4.8.1-4) ... Setting up libhtscodecs2:arm64 (1.1.1-3) ... Setting up media-types (6.0.0) ... Setting up libpipeline1:arm64 (1.5.5-1) ... Setting up libgraphite2-3:arm64 (1.3.14-1build1) ... Setting up liblcms2-2:arm64 (2.12~rc1-2build1) ... Setting up libxau6:arm64 (1:1.0.9-1build4) ... Setting up libpsl5:arm64 (0.21.0-1.2build1) ... Setting up libboost1.74-dev:arm64 (1.74.0-14ubuntu2) ... Setting up bsdextrautils (2.37.2-4ubuntu3) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libgslcblas0:arm64 (2.7.1+dfsg-3) ... Setting up libmurmurhash2:arm64 (1.5-3) ... Setting up libmagic-mgc (1:5.41-2) ... Setting up gawk (1:5.1.0-1build2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libyaml-0-2:arm64 (0.2.2-1build1) ... Setting up libglib2.0-0:arm64 (2.71.3-1) ... No schema files found: doing nothing. Setting up libpython3.9-minimal:arm64 (3.9.10-2) ... Setting up fonts-lyx (2.3.6-1) ... Setting up libdebhelper-perl (13.6ubuntu1) ... Setting up libbrotli1:arm64 (1.0.9-2build4) ... Setting up libcapnp-0.8.0:arm64 (0.8.0-2ubuntu2) ... Setting up x11-common (1:7.7+23ubuntu1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libnghttp2-14:arm64 (1.43.0-1build2) ... Setting up libmagic1:arm64 (1:5.41-2) ... Setting up libdeflate0:arm64 (1.10-1ubuntu1) ... Setting up gettext-base (0.21-4ubuntu3) ... Setting up libgsl27:arm64 (2.7.1+dfsg-3) ... Setting up m4 (1.4.18-5ubuntu1) ... Setting up libqhull-r8.0:arm64 (2020.2-4) ... Setting up rubygems-integration (1.18) ... Setting up file (1:5.41-2) ... Setting up fonts-urw-base35 (20200910-1) ... Setting up libfml0:arm64 (0.1+git20190320.b499514-1) ... Setting up libjbig0:arm64 (2.1-3.1build2) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg2-3ubuntu1) ... Setting up unicode-data (14.0.0-1.1) ... Setting up libxsimd-dev:arm64 (7.6.0-2) ... Setting up libminimap0:arm64 (0.2-6) ... Setting up autotools-dev (20220109.1) ... Setting up libblas3:arm64 (3.10.0-2ubuntu1) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libexpat1-dev:arm64 (2.4.7-1) ... Setting up libfreetype6:arm64 (2.11.1+dfsg-1) ... Setting up libx11-data (2:1.7.2-2) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2build3) ... Setting up ruby-net-telnet (0.1.1-2) ... Setting up libfribidi0:arm64 (1.0.8-2ubuntu2) ... Setting up libimagequant0:arm64 (2.17.0-1) ... Setting up mash (2.3+dfsg-1build2) ... Setting up libtcl8.6:arm64 (8.6.12+dfsg-1) ... Setting up autopoint (0.21-4ubuntu3) ... Setting up fonts-dejavu-core (2.37-2build1) ... Setting up ucf (3.0043) ... Setting up libjpeg-turbo8:arm64 (2.1.2-0ubuntu1) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg2-3ubuntu1) ... Setting up libssh-4:arm64 (0.9.6-2) ... Setting up libgfortran5:arm64 (12-20220313-1ubuntu1) ... Setting up autoconf (2.71-2) ... Setting up libwebp7:arm64 (1.2.2-2) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2ubuntu8) ... Setting up libmd0:arm64 (1.0.4-1) ... Setting up libuchardet0:arm64 (0.0.7-1build1) ... Setting up libmpdec3:arm64 (2.5.1-2build1) ... Setting up mummer (3.23+dfsg-7) ... Setting up libopenjp2-7:arm64 (2.4.0-6) ... Setting up libsub-override-perl (0.09-2) ... Setting up libharfbuzz0b:arm64 (2.7.4-1ubuntu3) ... Setting up sgml-base (1.30) ... Setting up libboost-dev:arm64 (1.74.0.3ubuntu6) ... Setting up libjs-jquery (3.6.0+dfsg+~3.5.13-1) ... Setting up python3.9-minimal (3.9.10-2) ... Setting up python-matplotlib-data (3.5.1-2build1) ... Setting up libwebpmux3:arm64 (1.2.2-2) ... Setting up libbsd0:arm64 (0.11.5-1) ... Setting up mailcap (3.70+nmu1ubuntu1) ... Setting up libelf1:arm64 (0.186-1) ... Setting up ruby-xmlrpc (0.3.2-1) ... Setting up liblocale-gettext-perl (1.07-4build3) ... Setting up libpython3.9-stdlib:arm64 (3.9.10-2) ... Setting up libjs-underscore (1.13.2~dfsg-2) ... Setting up libicu70:arm64 (70.1-2) ... Setting up libjpeg8:arm64 (8c-2ubuntu8) ... Setting up automake (1:1.16.5-1.1ubuntu4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.0-1) ... Setting up libdw1:arm64 (0.186-1) ... Setting up libxdmcp6:arm64 (1:1.1.3-0ubuntu4) ... Setting up liblapack3:arm64 (3.10.0-2ubuntu1) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libxcb1:arm64 (1.14-3ubuntu2) ... Setting up libopenblas0-pthread:arm64 (0.3.20+ds-1) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/openblas-pthread/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode update-alternatives: using /usr/lib/aarch64-linux-gnu/openblas-pthread/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode update-alternatives: using /usr/lib/aarch64-linux-gnu/openblas-pthread/libopenblas.so.0 to provide /usr/lib/aarch64-linux-gnu/libopenblas.so.0 (libopenblas.so.0-aarch64-linux-gnu) in auto mode Setting up libfml-dev:arm64 (0.1+git20190320.b499514-1) ... Setting up mime-support (3.66) ... Setting up libtool (2.4.6-15build1) ... Setting up fontconfig-config (2.13.1-4.2ubuntu4) ... Setting up libwebpdemux2:arm64 (1.2.2-2) ... Setting up libedit2:arm64 (3.1-20210910-1) ... Setting up libldap-2.5-0:arm64 (2.5.11+dfsg-1~exp1ubuntu3) ... Setting up help2man (1.49.1) ... Setting up libpython3.10-stdlib:arm64 (3.10.3-1) ... Setting up dh-autoreconf (20) ... Setting up libjs-jquery-ui (1.13.1+dfsg-1) ... Setting up libraqm0:arm64 (0.7.0-4ubuntu1) ... Setting up libminimap-dev:arm64 (0.2-6) ... Setting up libjs-sphinxdoc (4.3.2-1) ... Setting up dh-strip-nondeterminism (1.13.0-1) ... Setting up dwz (0.14-1build1) ... Setting up libopenblas0:arm64 (0.3.20+ds-1) ... Setting up groff-base (1.22.4-8) ... Setting up xml-core (0.18+nmu1) ... Setting up debugedit (1:5.0-4) ... Setting up libx11-6:arm64 (2:1.7.2-2) ... Setting up libtiff5:arm64 (4.3.0-6) ... Setting up libfontconfig1:arm64 (2.13.1-4.2ubuntu4) ... Setting up libxml2:arm64 (2.9.13+dfsg-1) ... Setting up python3.9 (3.9.10-2) ... Setting up libpython3-stdlib:arm64 (3.10.1-0ubuntu2) ... Setting up liblbfgsb0:arm64 (3.0+dfsg.3-10) ... Setting up libopenblas-pthread-dev:arm64 (0.3.20+ds-1) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/openblas-pthread/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode update-alternatives: using /usr/lib/aarch64-linux-gnu/openblas-pthread/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode update-alternatives: using /usr/lib/aarch64-linux-gnu/openblas-pthread/libopenblas.so to provide /usr/lib/aarch64-linux-gnu/libopenblas.so (libopenblas.so-aarch64-linux-gnu) in auto mode Setting up libpython3.10:arm64 (3.10.3-1) ... Setting up gettext (0.21-4ubuntu3) ... Setting up python3.10 (3.10.3-1) ... Setting up libxrender1:arm64 (1:0.9.10-1build3) ... Setting up libxext6:arm64 (2:1.3.4-1) ... Setting up libcurl3-gnutls:arm64 (7.81.0-1) ... Setting up python3 (3.10.1-0ubuntu2) ... Setting up man-db (2.10.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up python3-tz (2021.3-1) ... Setting up bowtie2 (2.4.5-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up python3-six (1.16.0-3) ... Setting up python3-pil:arm64 (9.0.1-1) ... Setting up libopenblas-dev:arm64 (0.3.20+ds-1) ... Setting up python3-decorator (4.4.2-0ubuntu1) ... Setting up python3-pyparsing (2.4.7-1) ... Setting up python3-brotli (1.0.9-2build4) ... Setting up python3-cycler (0.11.0-1) ... Setting up python3-reportlab-accel:arm64 (3.6.8-1) ... Setting up python3-kiwisolver (1.3.2-1) ... Setting up libpython3.10-dev:arm64 (3.10.3-1) ... Setting up python3-toml (0.10.2-1) ... Setting up python3-reportlab (3.6.8-1) ... Setting up python3.10-dev (3.10.3-1) ... Setting up libxslt1.1:arm64 (1.1.34-4build1) ... Setting up python3-dateutil (2.8.1-6) ... Setting up libxss1:arm64 (1:1.2.3-1build1) ... Setting up python3-mpmath (1.2.1-2) ... Setting up python3-lib2to3 (3.10.3-0ubuntu2) ... Setting up python3-appdirs (1.4.4-2) ... Setting up python3-soupsieve (2.3.1-1) ... Setting up python3-pkg-resources (59.6.0-1.2) ... Setting up python3-distutils (3.10.3-0ubuntu2) ... Setting up dh-python (5.20220215) ... Setting up python3-more-itertools (8.10.0-2) ... Setting up python3-iniconfig (1.1.1-2) ... Setting up python3-sympy (1.9-1) ... Setting up python3-attr (21.2.0-1) ... Setting up libxft2:arm64 (2.3.3-0ubuntu4) ... Setting up libhts3:arm64 (1.13+ds-2build1) ... Setting up python3-pysam (0.17.0+ds-2build1) ... Setting up libpython3-dev:arm64 (3.10.1-0ubuntu2) ... Setting up python3-renderpm:arm64 (3.6.8-1) ... Setting up python3-setuptools (59.6.0-1.2) ... Setting up python3-py (1.10.0-1) ... Setting up python3-lz4 (3.1.3+dfsg-1build2) ... Setting up python3-unicodedata2 (14.0.0+ds-8) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.12-1) ... Setting up python3-ply (3.11-5) ... Setting up python3-gast (0.5.2-2) ... Setting up python3-all (3.10.1-0ubuntu2) ... Setting up debhelper (13.6ubuntu1) ... Setting up python3-zipp (1.0.0-3) ... Setting up python3-bs4 (4.10.0-2) ... Setting up samtools (1.13-4) ... Setting up python3-fs (2.4.12-1) ... Setting up python3-beniget (0.4.1-2) ... Setting up python3-packaging (21.3-1) ... Setting up libpython3-all-dev:arm64 (3.10.1-0ubuntu2) ... Setting up python3-dev (3.10.1-0ubuntu2) ... Setting up python3-numpy (1:1.21.5-1) ... Setting up python3-pythran (0.10.0+ds2-1) ... Setting up python3-lxml:arm64 (4.8.0-1) ... Setting up python3-dendropy (4.5.2-1) ... Setting up python3-all-dev (3.10.1-0ubuntu2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-4.1build1) ... Setting up python3-scipy (1.8.0-1exp2) ... Setting up python3-importlib-metadata (4.6.4-1) ... Setting up blt (2.5.3+dfsg-4.1build1) ... Setting up fastaq (3.17.0-4) ... Setting up python3-tk:arm64 (3.10.3-0ubuntu2) ... Setting up python3-pymummer (0.11.0-2) ... Setting up python3-pil.imagetk:arm64 (9.0.1-1) ... Setting up python3-pluggy (0.13.0-7.1) ... Setting up python3-pytest (6.2.5-1ubuntu2) ... Setting up rake (13.0.6-2) ... Setting up python3-ufolib2 (0.13.1+dfsg1-1) ... Setting up libruby3.0:arm64 (3.0.2-7ubuntu1) ... Setting up ruby-rubygems (3.3.5-2) ... Setting up python3-fonttools (4.29.1-2build1) ... Setting up ruby3.0 (3.0.2-7ubuntu1) ... Setting up python3-matplotlib (3.5.1-2build1) ... Setting up ruby (1:3.0~exp1) ... Setting up ruby-asciidoctor (2.0.16-2) ... Setting up asciidoctor (2.0.16-2) ... Processing triggers for libc-bin (2.35-0ubuntu3) ... Processing triggers for sgml-base (1.30) ... Setting up w3-dtd-mathml (2.0.0.0-5.1) ... Processing triggers for sgml-base (1.30) ... Setting up python3-biopython (1.79+dfsg-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (arm64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-104-generic #118-Ubuntu SMP Wed Mar 2 19:03:41 UTC 2022 arm64 (aarch64) Toolchain package versions: binutils_2.38-3ubuntu1 dpkg-dev_1.21.1ubuntu1 g++-11_11.2.0-18ubuntu1 gcc-11_11.2.0-18ubuntu1 libc6-dev_2.35-0ubuntu3 libstdc++-11-dev_11.2.0-18ubuntu1 libstdc++6_12-20220313-1ubuntu1 linux-libc-dev_5.15.0-23.23 Package versions: adduser_3.118ubuntu5 advancecomp_2.1-2.1ubuntu1 apt_2.4.1 asciidoctor_2.0.16-2 autoconf_2.71-2 automake_1:1.16.5-1.1ubuntu4 autopoint_0.21-4ubuntu3 autotools-dev_20220109.1 base-files_12ubuntu2 base-passwd_3.5.52 bash_5.1-6ubuntu1 binutils_2.38-3ubuntu1 binutils-aarch64-linux-gnu_2.38-3ubuntu1 binutils-common_2.38-3ubuntu1 blt_2.5.3+dfsg-4.1build1 bowtie2_2.4.5-1 bsdextrautils_2.37.2-4ubuntu3 bsdutils_1:2.37.2-4ubuntu3 build-essential_12.9ubuntu2 bzip2_1.0.8-5 ca-certificates_20211016 cd-hit_4.8.1-4 coreutils_8.32-4.1ubuntu1 cpp_4:11.2.0-1ubuntu1 cpp-11_11.2.0-18ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-3 debconf_1.5.79ubuntu1 debhelper_13.6ubuntu1 debianutils_5.5-1ubuntu1 debugedit_1:5.0-4 dh-autoreconf_20 dh-python_5.20220215 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.8-0ubuntu1 dpkg_1.21.1ubuntu1 dpkg-dev_1.21.1ubuntu1 dwz_0.14-1build1 e2fsprogs_1.46.5-2ubuntu1 fakeroot_1.28-1ubuntu1 fastaq_3.17.0-4 file_1:5.41-2 findutils_4.8.0-1ubuntu2 fontconfig-config_2.13.1-4.2ubuntu4 fonts-dejavu-core_2.37-2build1 fonts-lyx_2.3.6-1 fonts-urw-base35_20200910-1 g++_4:11.2.0-1ubuntu1 g++-11_11.2.0-18ubuntu1 gawk_1:5.1.0-1build2 gcc_4:11.2.0-1ubuntu1 gcc-11_11.2.0-18ubuntu1 gcc-11-base_11.2.0-18ubuntu1 gcc-12-base_12-20220313-1ubuntu1 gettext_0.21-4ubuntu3 gettext-base_0.21-4ubuntu3 gpg_2.2.27-3ubuntu1 gpg-agent_2.2.27-3ubuntu1 gpgconf_2.2.27-3ubuntu1 gpgv_2.2.27-3ubuntu1 grep_3.7-1 groff-base_1.22.4-8 gzip_1.10-4ubuntu2 help2man_1.49.1 hostname_3.23ubuntu1 init_1.62 init-system-helpers_1.62 intltool-debian_0.35.0+20060710.5 libacl1_2.3.1-1 libapparmor1_3.0.4-2ubuntu2 libapt-pkg6.0_2.4.1 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.3 libasan6_11.2.0-18ubuntu1 libassuan0_2.5.5-1 libatomic1_12-20220313-1ubuntu1 libattr1_1:2.5.1-1 libaudit-common_1:3.0.7-1 libaudit1_1:3.0.7-1 libbinutils_2.38-3ubuntu1 libblas3_3.10.0-2ubuntu1 libblkid1_2.37.2-4ubuntu3 libboost-dev_1.74.0.3ubuntu6 libboost1.74-dev_1.74.0-14ubuntu2 libbrotli1_1.0.9-2build4 libbsd0_0.11.5-1 libbz2-1.0_1.0.8-5 libc-bin_2.35-0ubuntu3 libc-dev-bin_2.35-0ubuntu3 libc6_2.35-0ubuntu3 libc6-dev_2.35-0ubuntu3 libcap-ng0_0.7.9-2.2build3 libcap2_1:2.44-1build2 libcapnp-0.8.0_0.8.0-2ubuntu2 libcc1-0_12-20220313-1ubuntu1 libcom-err2_1.46.5-2ubuntu1 libcrypt-dev_1:4.4.27-1 libcrypt1_1:4.4.27-1 libcryptsetup12_2:2.4.3-1ubuntu1 libctf-nobfd0_2.38-3ubuntu1 libctf0_2.38-3ubuntu1 libcurl3-gnutls_7.81.0-1 libdb5.3_5.3.28+dfsg1-0.8ubuntu2 libdebconfclient0_0.261ubuntu1 libdebhelper-perl_13.6ubuntu1 libdeflate0_1.10-1ubuntu1 libdevmapper1.02.1_2:1.02.175-2.1ubuntu4 libdpkg-perl_1.21.1ubuntu1 libdw1_0.186-1 libedit2_3.1-20210910-1 libelf1_0.186-1 libexpat1_2.4.7-1 libexpat1-dev_2.4.7-1 libext2fs2_1.46.5-2ubuntu1 libfakeroot_1.28-1ubuntu1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libfml-dev_0.1+git20190320.b499514-1 libfml0_0.1+git20190320.b499514-1 libfontconfig1_2.13.1-4.2ubuntu4 libfreetype6_2.11.1+dfsg-1 libfribidi0_1.0.8-2ubuntu2 libgcc-11-dev_11.2.0-18ubuntu1 libgcc-s1_12-20220313-1ubuntu1 libgcrypt20_1.9.4-3ubuntu2 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgfortran5_12-20220313-1ubuntu1 libglib2.0-0_2.71.3-1 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readline-common_8.1.2-1 rpcsvc-proto_1.4.2-0ubuntu5 ruby_1:3.0~exp1 ruby-asciidoctor_2.0.16-2 ruby-net-telnet_0.1.1-2 ruby-rubygems_3.3.5-2 ruby-xmlrpc_0.3.2-1 ruby3.0_3.0.2-7ubuntu1 rubygems-integration_1.18 samtools_1.13-4 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1ubuntu1 sensible-utils_0.0.17 sgml-base_1.30 systemd_249.11-0ubuntu1 systemd-sysv_249.11-0ubuntu1 systemd-timesyncd_249.11-0ubuntu1 sysvinit-utils_3.01-1ubuntu1 tar_1.34+dfsg-1build2 tk8.6-blt2.5_2.5.3+dfsg-4.1build1 tzdata_2021e-1ubuntu1 ubuntu-keyring_2021.03.26 ucf_3.0043 unicode-data_14.0.0-1.1 usrmerge_25ubuntu2 util-linux_2.37.2-4ubuntu3 w3-dtd-mathml_2.0.0.0-5.1 x11-common_1:7.7+23ubuntu1 xml-core_0.18+nmu1 xz-utils_5.2.5-2build1 zlib1g_1:1.2.11.dfsg-2ubuntu8 zlib1g-dev_1:1.2.11.dfsg-2ubuntu8 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: ariba Binary: ariba Architecture: any Version: 2.14.6+ds-3build1 Maintainer: Debian Med Packaging Team Uploaders: Sascha Steinbiss Homepage: https://github.com/sanger-pathogens/ariba Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/ariba Vcs-Git: https://salsa.debian.org/med-team/ariba.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, python3-biopython, python3-all-dev, python3-dendropy, python3-setuptools, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3-pytest, python3-bs4, python3-matplotlib, python3-tk, bowtie2 (>= 2.1.0), cd-hit, mash, libminimap-dev, libfml-dev (>= 0.1-4~), mummer, fastaq (>= 3.12.0), help2man, asciidoctor, spades [amd64] Package-List: ariba deb science optional arch=any Checksums-Sha1: 9e4b9ed6460de8733b121f1a1b9cfa9785c25cb9 1970492 ariba_2.14.6+ds.orig.tar.xz 1515877787595ec27d03b823d6542899374cc1b0 9888 ariba_2.14.6+ds-3build1.debian.tar.xz Checksums-Sha256: b7329ba1983834d3d49a97f838b1fa7e3bdd4556fc45220c75fa7d59c271ec4c 1970492 ariba_2.14.6+ds.orig.tar.xz 5a048091866dbf9b2b83a20df469c3ef6ace6bed68675ce0437b7de9fc138205 9888 ariba_2.14.6+ds-3build1.debian.tar.xz Files: 908a550cb2c7683a271f16aee3f079ad 1970492 ariba_2.14.6+ds.orig.tar.xz 3b3222cc8149e2a707e2274c04a8acd9 9888 ariba_2.14.6+ds-3build1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEJeP/LX9Gnb59DU5Qr8/sjmac4cIFAmIyOHkACgkQr8/sjmac 4cIZYA//VdIR1CAWzG/PUIHnj/t3IUYc0lu9YZ8H7KgiBcXS3fC5u3k5plisl9nt 6x7T6cj2myjEiHAAuuWYEnG6/JY5dhbwZXdj2a4Q7WR1EjmU2W1Ipa+vjC8Q9cM5 YvOBpsFgsX6yeZEh/X1RPNwWfp7db7ZBap2ZTQy/V+JeQNyWrLQ2ebRbgHCSXx7t k/cFJZ59jAFM7YJAVm4ZAArmqHvMJV+DIYvG2PQIGKGUp3aARn6NORAq05qoyAT9 l3ITIuyoeD5f6rOC8zgCsKljGtpYJTA1OlZHLF3/fPSqKAHShk5MG1GhTCdDF5yI 9zqbPuwlWnX1Ll8SPGBKKNdi+HkUZIZOA0j5DWjltPKWen+oPOneAXpGYCwRjeV4 zDajfJ/qkW/4Cy/Lwu1rlJSwr7ET08rM1Vy2faV5H1FJLHrCUHec9Bk8XN648+he 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dpkg-source: info: applying support-pymummer-0.11.patch dpkg-source: info: applying run-debian-spades-wrapper.patch dpkg-source: info: applying port-to-pytest.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-23248860 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-23248860 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-23248860 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package ariba dpkg-buildpackage: info: source version 2.14.6+ds-3build1 dpkg-buildpackage: info: source distribution jammy dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --with python3 --buildsystem=pybuild debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' rm -rf /<>/debian/man dh_auto_clean -- I: pybuild base:237: python3.10 setup.py clean running clean removing '/<>/.pybuild/cpython3_3.10_ariba/build' (and everything under it) 'build/bdist.linux-arm64' does not exist -- can't clean it 'build/scripts-3.10' does not exist -- can't clean it make[1]: Leaving directory '/<>' dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary-arch dh binary-arch --with python3 --buildsystem=pybuild dh_update_autotools_config -a -O--buildsystem=pybuild dh_autoreconf -a -O--buildsystem=pybuild dh_auto_configure -a -O--buildsystem=pybuild I: pybuild base:237: python3.10 setup.py config running config dh_auto_build -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3 setup.py build running build running build_py creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/refdata_query.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/read_filter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/common.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/__init__.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary_sample.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary_cluster.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/megares_zip_parser.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/external_progs.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/megares_data_finder.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/ref_preparer.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/assembly_variants.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mlst_profile.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/ref_seq_chooser.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/tb.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/report.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mic_plotter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary_cluster_variant.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/clusters.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/vfdb_parser.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/pubmlst_getter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/versions.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/report_flag_expander.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/flag.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/assembly_compare.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/reference_data.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/sequence_metadata.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/cluster.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/link.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/bam_parse.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/faidx.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/card_record.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/pubmlst_ref_preparer.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mlst_reporter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/samtools_variants.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/scaffold_graph.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/cdhit.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/histogram.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/summary.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/sequence_variant.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/assembly.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/aln_to_metadata.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/ref_genes_getter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/read_store.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/report_filter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba copying ariba/mapping.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/reportfilter.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/__init__.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/prepareref_tb.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/getref.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/aln2meta.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/prepareref.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/refquery.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/expandflag.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/pubmlstspecies.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/flag.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/pubmlstget.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/run.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/version.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/micplot.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks copying ariba/tasks/summary.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ncbi_getter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/report_flag_expander_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/scaffold_graph_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/__init__.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/megares_zip_parser_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/versions_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/clusters_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mapping_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/external_progs_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ref_preparer_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_cluster_variant_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/sequence_variant_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/card_record_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/vfdb_parser_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/link_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/assembly_variants_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ref_genes_getter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/assembly_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/bam_parse_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/tb_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/cdhit_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_cluster_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/read_filter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/read_store_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/pubmlst_ref_preparer_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/samtools_variants_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/test_refdata_query.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/common_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/megares_data_finder_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/cluster_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/histogram_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/flag_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mic_plotter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/faidx_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/pubmlst_getter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_sample_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mlst_reporter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/reference_data_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/sequence_metadata_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/report_filter_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/aln_to_metadata_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/assembly_compare_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/summary_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/mlst_profile_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests copying ariba/tests/ref_seq_chooser_test.py -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/ref_fasta_to_make_reads_from.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data copying ariba/test_run_data/ref_seqs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20190102.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181115.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20190102.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181115.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181221.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/NC_000962.3.fa.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/panel.20181221.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data copying ariba/tb_data/NC_000962.3.gb -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_fix_contig_orientation.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_write_tb_resistance_calls_json.out.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_sorted.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/tb_report_to_resistance_dict.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.in.3 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_whole_run.in.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.depths.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_keep_seqs_from_dict.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.expect.clstrs.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_variants_only.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_presence_absence.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/vfdb_parser_test_run.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_parse_assembly_bam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_data_info_file -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.rename -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.new_st.report.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_sort_file.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_db.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.cov -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_noncoding.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.in2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/tb_genbank_to_gene_coords.gb -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_non_coding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_sam_to_soft_clipped.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.1.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_insert_histogram.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.good -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_rename_seqs.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link.bam.bai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_assembly_fail.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_multiple_vars.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run_get_clusters_from_dict_rename.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_mummer_variants.none.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.coords -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_scaffold_with_sspace_contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_sam_to_soft_clipped.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snps.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_too_long.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/vfdb_parser_test_run.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.cluster2representative -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_clean.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variant_positions_from_vcf.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.all_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_fasta_file.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.out.cluster -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variants.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_run.expected.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_flag_expander.run.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_var_groups.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_aln_file.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_unsorted.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.meta.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.bad1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_init_refdata.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.in1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/faidx_test_write_fa_subset.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_column_summary_data.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_rename_sequences_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_insert_codon.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.profile.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/tb_write_prepareref_metadata_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_profile_test.profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_duplicate_name.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_fasta_to_metadata.coding.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_count_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_sequence_is_in_fasta_file.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_variants_in_coords.vcf -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_fake_run.non-unique.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_genes.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link.bam.bai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_metadata_tsv.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_multiple_vars.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_get_total_alignment_score.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_run_with_tb.reads_2.fq.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.one_gene_missing.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.ariba.report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_catted_assemblies_fasta.expected.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.smi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.sma -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.hist -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_compare_parse_nucmer_coords_file.coords -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_to_matrix.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_ok.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_vars_file_good.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_remove_bad_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_fasta_files.in.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.cluster_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_vars_file_bad.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_cat_genes_match_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_depths_at_position.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_rename_seqs.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_metadata_tsv.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.clstrs.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_fake_run.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_check_spades_log_file.log.good -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_presence_absence.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.allrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_load_annotations.csv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.3.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_getter.dbases.xml -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_run.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_write_all_links_to_file.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_sequences_to_files.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.pairs -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snps.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_non_coding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_count_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.clstrs.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_write_files.expect.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snp.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.insertHistogram -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_varonly.not_present.always_report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.expect.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_noncoding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_keep_seqs_from_dict.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_gene_fa.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_load_input_files.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_partial_asmbly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_parse_assembly_bam.assembly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_delete_codon.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.params.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_mlst_reports.mlst_profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_load_input_files.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_whole_run.out.csv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.properPairs -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr_count -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_write_report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_init_bad.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_init.fofn -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.in.read_store -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snps.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_profile_test.init_multiple_extra_columns.profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_fails.empty.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.expected.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr2rep -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.clusters -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.one_gene_missing.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ctg.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_proper_pairs.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_sam_pair_to_insert.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite_fails.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_gather_unfiltered_output_data.in.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_filter_test_run.expected.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_fix_contig_orientation.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.all_present_perfect.report.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.in.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_non_synon_variants.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.expect.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.one_gene_missing.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_sort_file.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence_type.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_write_distance_matrix.distances -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_run_with_tb.reads_1.fq.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.sma -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_total_depth_per_contig -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_sam_to_fastq.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_fails.empty.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_fasta_to_metadata.noncoding.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.2.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.new_st.report.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.expected_contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_init_good.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_fails.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.cluster_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz.tbi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_sam_to_soft_clipped.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_presence_absence.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.4.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_column_names_tuples_and_het_snps.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_load_fofn -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.make_link.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_scaffold_with_sspace_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_write_tb_resistance_calls_json.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_fix_contig_orientation.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_mummer_variants.snp.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_read_depths.gz.tbi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_get_reads.expected.reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snp.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.smi -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence_type.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_variants_only.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/dummy.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_partial_asmbly.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads.no_link_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_make_cluster_file.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_load_report_good.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_coding.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.bam -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.4.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_run.in.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.new_st.report.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_remove_bad_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_run_noncoding.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite_fail.reads.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.all_present_perfect.report.out.details.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_insert_codon.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_report.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.out2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.het_snp.out.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_spaces_in_name.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_filter_test_load_report_bad.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_files.clusterCounts -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_load_header_mappings.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_test_flanking.all_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parse_extract_files_ok.zip -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_make_reads_for_assembly.out1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_dummy_db.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_check_spades_log_file.log.bad -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_remove_bad_genes.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.all_refs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/faidx_test_write_fa_subset.in.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_newick_from_dist_matrix.distances -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_rename_sequences.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/best_seq_chooser_best_seq_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_sam_pair_to_insert_reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refdata_query_prepareref.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_preparer_test_fasta_to_metadata.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_load_mic_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_variants_only.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_presence_absence.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refdata_query_prepareref.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_read_depths.gz -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_sequence.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/graph_test_update_from_sam.ref.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_all_fasta_files.in.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_gene_fa.db.fa.fai -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.rename.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/read_store_test_compress_and_index_file.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parser_write_files.expect.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_rename_sequences.out -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/test_common_cat_files.in.2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_to_matrix.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_gene_fa.db.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_init_ok.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.contigs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_variants_test_get_variants_variants_only.snps -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_run_fermilite.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_profile_test.init.profile.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.bad2 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/assembly_test_scaffold_with_sspace_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/vfdb_parser_test_run.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/link_test_init.reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_not_gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.1 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mlst_reporter.all_present_perfect.report.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_sample_test_load_file.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_gather_unfiltered_output_data.in.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/aln_to_metadata_load_vars_file_bad.2.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/summary_test_whole_run.in.1.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_test_write_seqs_to_fasta.expected.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/faidx_test_write_fa_subset.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_delete_codon.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_write_catted_assembled_genes_fasta.expected.out.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_load_summary_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/bam_parse_test_parse.reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_filter_bad_data.expected.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_load_user_clusters_file.bad3 -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.clusterrefs.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_fix_out.removed.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_init_refdata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cdhit_test_run.in.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/report_flag_expander.run.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mapping_test_bowtie2_reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/megares_zip_parse_extract_files_one_missing.zip -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.expect.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.no_combinations.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/reference_data_load_rename_file.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/refcheck_test_check_too_short.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data copying ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/00.rename_info -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref copying ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding copying ariba/tests/data/cluster_test_full_run_ok_non_coding/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding copying ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding copying ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out copying ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.rename_info -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/00.params.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref copying ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon copying ariba/tests/data/cluster_test_full_run_delete_codon/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail copying ariba/tests/data/cluster_test_full_run_assembly_fail/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail copying ariba/tests/data/cluster_test_full_run_assembly_fail/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail copying ariba/tests/data/cluster_test_full_run_assembly_fail/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying ariba/tests/data/cluster_test_full_run_ok_presence_absence/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars copying ariba/tests/data/cluster_test_full_run_multiple_vars/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly copying ariba/tests/data/cluster_test_full_run_partial_asmbly/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly copying ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly copying ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene1.tfa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/profile.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene2.tfa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa copying ariba/tests/data/cluster_test_init_no_refs_fa/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa copying ariba/tests/data/cluster_test_init_no_refs_fa/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying ariba/tests/data/cluster_test_full_run_choose_ref_fail/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.auto_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_genes.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.version_info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.varonly.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_noncoding.log -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files copying ariba/tests/data/megares_zip_parser_write_files/megares_database_v1.01.fasta -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files copying ariba/tests/data/megares_zip_parser_write_files/megares_annotations_v1.01.csv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files copying ariba/tests/data/megares_zip_parser_write_files/megares_to_external_header_mappings_v1.01.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2 copying ariba/tests/data/cluster_test_init_no_reads_2/genes.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2 copying ariba/tests/data/cluster_test_init_no_reads_2/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2 creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/01.filter.check_metadata.tsv -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/00.params.json -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.all.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/00.info.txt -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir copying ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.clusters.pickle -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only copying ariba/tests/data/cluster_test_full_run_ok_variants_only/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only copying ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only copying ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/for_reads.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon copying ariba/tests/data/cluster_test_full_run_insert_codon/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1 copying ariba/tests/data/cluster_test_init_no_reads_1/genes.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1 copying ariba/tests/data/cluster_test_init_no_reads_1/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1 creating /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/references.fa -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_1.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_2.fq -> /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene running build_ext building 'minimap_ariba' extension creating build creating build/temp.linux-arm64-3.10 creating build/temp.linux-arm64-3.10/ariba creating build/temp.linux-arm64-3.10/ariba/ext aarch64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/minimap -I/usr/include/python3.10 -c ariba/ext/minimap_ariba.cpp -o build/temp.linux-arm64-3.10/ariba/ext/minimap_ariba.o ariba/ext/minimap_ariba.cpp: In function ‘bool readMappingOk(const mm_reg1_t*, const mm_idx_t*, const kseq_t*, uint32_t)’: ariba/ext/minimap_ariba.cpp:371:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const unsigned int’ [-Wsign-compare] 371 | if (r->qe - r->qs < std::min((unsigned) 50, (int) 0.5 * ks->seq.l)) | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:381:26: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 381 | startOk = (r->qs < endTolerance || refLength - r->re < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:382:60: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 382 | endOk = (ks->seq.l - r->qe < endTolerance || r->rs < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:386:26: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 386 | startOk = (r->qs < endTolerance || r->rs < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ ariba/ext/minimap_ariba.cpp:386:50: warning: comparison of integer expressions of different signedness: ‘const int32_t’ {aka ‘const int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 386 | startOk = (r->qs < endTolerance || r->rs < endTolerance); | ~~~~~~^~~~~~~~~~~~~~ aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.10/ariba/ext/minimap_ariba.o -o /<>/.pybuild/cpython3_3.10_ariba/build/minimap_ariba.cpython-310-aarch64-linux-gnu.so -lz -lminimap building 'fermilite_ariba' extension aarch64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c ariba/ext/fml-asm_ariba.cpp -o build/temp.linux-arm64-3.10/ariba/ext/fml-asm_ariba.o aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.10/ariba/ext/fml-asm_ariba.o -o /<>/.pybuild/cpython3_3.10_ariba/build/fermilite_ariba.cpython-310-aarch64-linux-gnu.so -lz -lfml building 'vcfcall_ariba' extension aarch64-linux-gnu-gcc -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I/usr/include/python3.10 -c ariba/ext/vcfcall_ariba.cpp -o build/temp.linux-arm64-3.10/ariba/ext/vcfcall_ariba.o aarch64-linux-gnu-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -g -fwrapv -O2 -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-arm64-3.10/ariba/ext/vcfcall_ariba.o -o /<>/.pybuild/cpython3_3.10_ariba/build/vcfcall_ariba.cpython-310-aarch64-linux-gnu.so running build_scripts creating build/scripts-3.10 copying and adjusting scripts/ariba -> build/scripts-3.10 changing mode of build/scripts-3.10/ariba from 644 to 755 dh_auto_test -a -O--buildsystem=pybuild I: pybuild base:237: cd /<>/.pybuild/cpython3_3.10_ariba/build; python3.10 -m pytest ============================= test session starts ============================== platform linux -- Python 3.10.3, pytest-6.2.5, py-1.10.0, pluggy-0.13.0 rootdir: /<>, configfile: pytest.ini collected 356 items ariba/tests/aln_to_metadata_test.py .................... [ 5%] ariba/tests/assembly_compare_test.py ................ [ 10%] ariba/tests/assembly_test.py ..ss..... [ 12%] ariba/tests/assembly_variants_test.py ........... [ 15%] ariba/tests/bam_parse_test.py ...... [ 17%] ariba/tests/card_record_test.py ........ [ 19%] ariba/tests/cdhit_test.py ................ [ 24%] ariba/tests/cluster_test.py ............................. [ 32%] ariba/tests/clusters_test.py ................ [ 36%] ariba/tests/common_test.py .. [ 37%] ariba/tests/external_progs_test.py . [ 37%] ariba/tests/faidx_test.py . [ 37%] ariba/tests/flag_test.py ....... [ 39%] ariba/tests/histogram_test.py .... [ 41%] ariba/tests/link_test.py ......... [ 43%] ariba/tests/mapping_test.py ....... [ 45%] ariba/tests/megares_data_finder_test.py .. [ 46%] ariba/tests/megares_zip_parser_test.py ..... [ 47%] ariba/tests/mic_plotter_test.py ............. [ 51%] ariba/tests/mlst_profile_test.py .... [ 52%] ariba/tests/mlst_reporter_test.py ..... [ 53%] ariba/tests/pubmlst_getter_test.py ... [ 54%] ariba/tests/pubmlst_ref_preparer_test.py .. [ 55%] ariba/tests/read_filter_test.py . [ 55%] ariba/tests/read_store_test.py ....... [ 57%] ariba/tests/ref_genes_getter_test.py . [ 57%] ariba/tests/ref_preparer_test.py ..... [ 58%] ariba/tests/ref_seq_chooser_test.py ....... [ 60%] ariba/tests/reference_data_test.py .............................. [ 69%] ariba/tests/report_filter_test.py ................. [ 74%] ariba/tests/report_flag_expander_test.py . [ 74%] ariba/tests/samtools_variants_test.py ....... [ 76%] ariba/tests/scaffold_graph_test.py ..... [ 77%] ariba/tests/sequence_metadata_test.py ..... [ 79%] ariba/tests/sequence_variant_test.py ....... [ 81%] ariba/tests/summary_cluster_test.py ....................... [ 87%] ariba/tests/summary_cluster_variant_test.py .... [ 88%] ariba/tests/summary_sample_test.py .... [ 89%] ariba/tests/summary_test.py .................... [ 95%] ariba/tests/tb_test.py ....... [ 97%] ariba/tests/test_refdata_query.py ..... [ 98%] ariba/tests/versions_test.py . [ 99%] ariba/tests/vfdb_parser_test.py ... [100%] =============================== warnings summary =============================== ariba/mapping.py:3 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mapping.py:3: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives from distutils.version import LooseVersion ariba/external_progs.py:34 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py:34: DeprecationWarning: invalid escape sequence '\.' 'cdhit': ('', re.compile('CD-HIT version ([0-9\.]+) \(')), ariba/external_progs.py:35 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py:35: DeprecationWarning: invalid escape sequence '\.' 'nucmer': ('--version', re.compile('([0-9]+\.[0-9\.]+.*$)')), ariba/external_progs.py:36 /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py:36: DeprecationWarning: invalid escape sequence '\s' 'spades': ('--version', re.compile('SPAdes\s+v([0-9\.]+)')) -- Docs: https://docs.pytest.org/en/stable/warnings.html ============ 354 passed, 2 skipped, 4 warnings in 238.62s (0:03:58) ============ create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=pybuild dh_prep -a -O--buildsystem=pybuild dh_auto_install --destdir=debian/ariba/ -a -O--buildsystem=pybuild I: pybuild base:237: /usr/bin/python3 setup.py install --root /<>/debian/ariba running install /usr/lib/python3/dist-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running build running build_py running build_ext running build_scripts running install_lib creating /<>/debian/ariba/usr creating /<>/debian/ariba/usr/lib creating /<>/debian/ariba/usr/lib/python3.10 creating /<>/debian/ariba/usr/lib/python3.10/dist-packages copying /<>/.pybuild/cpython3_3.10_ariba/build/minimap_ariba.cpython-310-aarch64-linux-gnu.so -> /<>/debian/ariba/usr/lib/python3.10/dist-packages copying /<>/.pybuild/cpython3_3.10_ariba/build/fermilite_ariba.cpython-310-aarch64-linux-gnu.so -> /<>/debian/ariba/usr/lib/python3.10/dist-packages copying /<>/.pybuild/cpython3_3.10_ariba/build/vcfcall_ariba.cpython-310-aarch64-linux-gnu.so -> /<>/debian/ariba/usr/lib/python3.10/dist-packages creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/refdata_query.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/read_filter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/common.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__init__.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary_sample.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary_cluster.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/megares_zip_parser.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/ref_fasta_to_make_reads_from.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/test_run_data/ref_seqs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/test_run_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/external_progs.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/megares_data_finder.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/ref_preparer.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/assembly_variants.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mlst_profile.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/ref_seq_chooser.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/report.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/reportfilter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__init__.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/prepareref_tb.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/getref.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/aln2meta.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/prepareref.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/refquery.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/expandflag.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/pubmlstspecies.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/flag.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/pubmlstget.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/run.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/version.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/micplot.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/summary.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/summary.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/getref.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/reportfilter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/aln2meta.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/prepareref.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/version.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/__init__.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/flag.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/expandflag.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/micplot.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/pubmlstget.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/run.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/test.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/pubmlstspecies.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/refquery.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tasks/__pycache__/prepareref_tb.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mic_plotter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary_cluster_variant.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/clusters.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/vfdb_parser.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/pubmlst_getter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/versions.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/report_flag_expander.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/flag.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ncbi_getter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/report_flag_expander_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/scaffold_graph_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__init__.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/megares_zip_parser_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/versions_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/clusters_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mapping_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/external_progs_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ref_preparer_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_cluster_variant_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/sequence_variant_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/card_record_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/vfdb_parser_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/link_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/assembly_variants_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ref_genes_getter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/assembly_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/bam_parse_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/tb_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/cdhit_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_cluster_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/read_filter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/read_store_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/pubmlst_ref_preparer_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/samtools_variants_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/test_refdata_query.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/common_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/megares_data_finder_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/cluster_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/histogram_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/flag_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mic_plotter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/faidx_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/pubmlst_getter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_sample_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_fix_contig_orientation.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_write_tb_resistance_calls_json.out.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_sorted.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/tb_report_to_resistance_dict.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.in.3 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_whole_run.in.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.depths.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_keep_seqs_from_dict.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.expect.clstrs.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_variants_only.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_presence_absence.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene1.tfa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/profile.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in/gene2.tfa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.in copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/vfdb_parser_test_run.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_parse_assembly_bam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_data_info_file -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.rename -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.new_st.report.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_sort_file.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_db.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.cov -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_noncoding.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.in2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/tb_genbank_to_gene_coords.gb -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_sam_to_soft_clipped.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.expect.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.1.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2/genes.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_2/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_insert_histogram.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.good -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_rename_seqs.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link.bam.bai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run_get_clusters_from_dict_rename.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_mummer_variants.none.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.coords -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_scaffold_with_sspace_contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_sam_to_soft_clipped.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snps.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.auto_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_all_noncoding.out/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_all_noncoding.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_too_long.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/vfdb_parser_test_run.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.cluster2representative -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_clean.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variant_positions_from_vcf.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.all_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_1 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1/genes.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_1 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_reads_1/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_reads_1 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_fasta_file.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.out.cluster -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variants.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_variants_only copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_run.expected.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_flag_expander.run.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_var_groups.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_aln_file.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_unsorted.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.meta.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.bad1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_refdata.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.in1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/faidx_test_write_fa_subset.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_column_summary_data.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_rename_sequences_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.csv.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.profile.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/tb_write_prepareref_metadata_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_profile_test.profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_duplicate_name.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_fasta_to_metadata.coding.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_count_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_sequence_is_in_fasta_file.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_variants_in_coords.vcf -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_fake_run.non-unique.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_genes.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link.bam.bai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_metadata_tsv.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_get_total_alignment_score.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.reads_2.fq.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_delete_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.one_gene_missing.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.ariba.report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_catted_assemblies_fasta.expected.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.smi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.sma -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.hist -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_compare_parse_nucmer_coords_file.coords -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_to_matrix.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_ok.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_vars_file_good.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_remove_bad_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_fasta_files.in.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.cluster_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_vars_file_bad.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_cat_genes_match_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_depths_at_position.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_genes_getter.fix_virulencefinder_fasta_file.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_rename_seqs.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_metadata_tsv.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.clstrs.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_fake_run.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_check_spades_log_file.log.good -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_presence_absence.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_insert_codon copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_is_in_cluster.allrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_load_annotations.csv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.3.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_getter.dbases.xml -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_run.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_write_all_links_to_file.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_sequences_to_files.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/00.params.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.ref/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_run_with_tb.ref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.pairs -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snps.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_non_coding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_count_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/00.rename_info -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/refdata_query_prepareref copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.clstrs.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files.expect.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.rename_info -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run_noncoding_checks.out creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snp.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.insertHistogram -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_varonly.not_present.always_report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.expect.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_noncoding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.no.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.yes.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_keep_seqs_from_dict.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_gene_fa.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_multiple_vars/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_multiple_vars copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_load_input_files.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_parse_assembly_bam.assembly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_noncdg.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.params.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_mlst_reports.mlst_profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_load_input_files.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_whole_run.out.csv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.properPairs -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr_count -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_write_report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_no_nucmer_match.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2 creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_init_bad.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_init.fofn -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.in.read_store -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snps.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_profile_test.init_multiple_extra_columns.profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_fails.empty.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.expected.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.out.clstr2rep -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_no_snp.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.in.clusters -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_assemble_with_spades_fails_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.one_gene_missing.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ctg.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_proper_pairs.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_sam_pair_to_insert.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_best_match_not_in_cluster.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite_fails.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_one_var_one_ctg_cdg.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_gather_unfiltered_output_data.in.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_filter_test_run.expected.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_fix_contig_orientation.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.all_present_perfect.report.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.in.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_non_synon_variants.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/pubmlst_ref_prepare.test_load_fa_and_clusters.expect.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.one_gene_missing.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_sort_file.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_clstrs_file.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence_type.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_write_distance_matrix.distances -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_run_with_tb.reads_1.fq.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_ref.fa.sma -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_total_depth_per_contig -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_sam_to_fastq.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_fails.empty.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_fasta_to_metadata.noncoding.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene.ref_for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.no.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.2.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.new_st.report.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.expected_contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc_no_snp.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_init_good.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_fails.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.cluster_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_variants.read_depths.gz.tbi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_sam_to_soft_clipped.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_presence_absence.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.4.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_column_names_tuples_and_het_snps.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_load_fofn -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/00.params.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_load_ref_data_from_dir/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/clusters_load_ref_data_from_dir copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.make_link.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_scaffold_with_sspace_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_write_tb_resistance_calls_json.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_fix_contig_orientation.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_mummer_variants.snp.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_read_depths.gz.tbi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_get_reads.expected.reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snp.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa.smi -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_varonly_nonc copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence_type.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/dummy.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.csv.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads.no_link_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_get_best_seq_by_alignment_score_ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.good.fa.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_make_cluster_file.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_load_report_good.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_coding.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_refs_fa copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_refs_fa copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_no_refs_fa/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_init_no_refs_fa copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.bam -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.4.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.in.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.new_st.report.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_remove_bad_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_run_noncoding.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite_fail.reads.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.all_present_perfect.report.out.details.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_total_alignment_score_ref_seqs.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_insert_codon.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_remove_both_unmapped_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_report.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.out2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.het_snp.out.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_spaces_in_name.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_filter_test_load_report_bad.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_files.clusterCounts -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_load_header_mappings.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.varonly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/00.info.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_noncoding.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/ref_preparer_test_run.out copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_test_flanking.all_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parse_extract_files_ok.zip -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_make_reads_for_assembly.out1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio2.exclude.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_dummy_db.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_check_spades_log_file.log.bad -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_remove_bad_genes.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ref_not_in_cluster.all_refs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/faidx_test_write_fa_subset.in.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_soft_clipped_from_sam.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.yes.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_newick_from_dist_matrix.distances -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_known_snp_presabs_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_rename_sequences.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/best_seq_chooser_best_seq_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_sam_pair_to_insert_reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_preparer_test_fasta_to_metadata.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_load_mic_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_variants_only.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refdata_query_prepareref.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_read_depths.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_sequence.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/graph_test_update_from_sam.ref.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_all_fasta_files.in.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_minimap_reads_to_all_refs.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.for_reads.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_gene_fa.db.fa.fai -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.rename.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/read_store_test_compress_and_index_file.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files.expect.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_rename_sequences.out -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/test_common_cat_files.in.2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_to_matrix.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_choose_ref_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_gene_fa.db.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_init_ok.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_smtls_snp_varonly_nonc.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_contained_ref_seq.contigs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_variants_test_get_variants_variants_only.snps -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_run_fermilite.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_profile_test.init.profile.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.bad2 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/assembly_test_scaffold_with_sspace_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/vfdb_parser_test_run.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/link_test_init.reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files/megares_database_v1.01.fasta -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files/megares_annotations_v1.01.csv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parser_write_files/megares_to_external_header_mappings_v1.01.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/megares_zip_parser_write_files creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_full_run_smtls_snp_presabs_gene copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_not_gene.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_smtls_snp_varonly_gene_2.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_full_run_known_smtls_snp_presabs_nonc.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_input_check_seq_names.bad.fa.1 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mlst_reporter.all_present_perfect.report.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_sample_test_load_file.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_gather_unfiltered_output_data.in.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/aln_to_metadata_load_vars_file_bad.2.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/summary_test_whole_run.in.1.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_test_write_seqs_to_fasta.expected.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/faidx_test_write_fa_subset.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_update_unmapped_mates_from_sam.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_delete_codon.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_assembly_fail copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_write_catted_assembled_genes_fasta.expected.out.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_load_summary_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/bam_parse_test_parse.reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_filter_bad_data.expected.log -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_make_vcf_and_depths_files.asmbly.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_load_user_clusters_file.bad3 -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_full_run_not_in_cluster.clusterrefs.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_fix_out.removed.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_partial_asmbly/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_partial_asmbly copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/ref_seq_chooser_matching_contig_pieces.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_non_coding/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_non_coding copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_init_refdata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cdhit_test_run.in.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/report_flag_expander.run.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence/references.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_1.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_presence_absence/reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data/cluster_test_full_run_ok_presence_absence copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mapping_test_bowtie2_reads_2.fq -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/megares_zip_parse_extract_files_one_missing.zip -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_cluster_w_cdhit_nocluster.expect.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/mic_plotter_to_boxplot_tsv.antibio1.exclude.no_combinations.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/reference_data_load_rename_file.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/samtools_variants_test_get_depths_at_position.ref.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/refcheck_test_check_too_short.fa -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mlst_reporter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/reference_data_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/sequence_metadata_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mlst_profile_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/cdhit_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/versions_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/bam_parse_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/report_flag_expander_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/scaffold_graph_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/read_store_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/assembly_variants_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mic_plotter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/common_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mapping_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ref_seq_chooser_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/pubmlst_ref_preparer_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/cluster_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/report_filter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ncbi_getter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/link_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ref_preparer_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/megares_data_finder_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/assembly_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/flag_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/tb_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/__init__.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/card_record_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/histogram_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/clusters_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/assembly_compare_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/mlst_reporter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/vfdb_parser_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_sample_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/sequence_variant_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/test_refdata_query.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/read_filter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/ref_genes_getter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/samtools_variants_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/sequence_metadata_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_cluster_variant_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/aln_to_metadata_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/pubmlst_getter_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/faidx_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/external_progs_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/summary_cluster_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/reference_data_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/__pycache__/megares_zip_parser_test.cpython-310-pytest-6.2.5.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/report_filter_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/aln_to_metadata_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/assembly_compare_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/summary_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/mlst_profile_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tests/ref_seq_chooser_test.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/assembly_compare.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/reference_data.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/sequence_metadata.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/cluster.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/link.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/bam_parse.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/faidx.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/card_record.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/pubmlst_ref_preparer.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mlst_reporter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/samtools_variants.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/scaffold_graph.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/cdhit.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/histogram.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/summary.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/sequence_variant.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/report_filter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary_cluster_variant.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/cdhit.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/histogram.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/megares_data_finder.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/refdata_query.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/sequence_metadata.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/pubmlst_getter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/report_flag_expander.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/bam_parse.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary_sample.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/report.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/ref_genes_getter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mic_plotter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/vfdb_parser.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/ref_seq_chooser.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/link.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/reference_data.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/assembly_variants.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/card_record.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/read_filter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/summary_cluster.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/versions.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/__init__.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/flag.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/aln_to_metadata.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/megares_zip_parser.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/common.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/clusters.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mlst_profile.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/external_progs.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/tb.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/assembly.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/samtools_variants.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/faidx.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/scaffold_graph.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/assembly_compare.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/cluster.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mapping.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/read_store.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/pubmlst_ref_preparer.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/ref_preparer.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/sequence_variant.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/__pycache__/mlst_reporter.cpython-310.pyc -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__pycache__ copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/assembly.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/aln_to_metadata.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/ref_genes_getter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/read_store.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/report_filter.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba creating /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20190102.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181115.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20190102.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181115.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181221.json -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/NC_000962.3.fa.gz -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/panel.20181221.txt -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/tb_data/NC_000962.3.gb -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb_data copying /<>/.pybuild/cpython3_3.10_ariba/build/ariba/mapping.py -> /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/refdata_query.py to refdata_query.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/read_filter.py to read_filter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/common.py to common.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/__init__.py to __init__.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary_sample.py to summary_sample.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary_cluster.py to summary_cluster.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/megares_zip_parser.py to megares_zip_parser.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/external_progs.py to external_progs.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/megares_data_finder.py to megares_data_finder.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/ref_preparer.py to ref_preparer.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/assembly_variants.py to assembly_variants.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mlst_profile.py to mlst_profile.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/ref_seq_chooser.py to ref_seq_chooser.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tb.py to tb.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/report.py to report.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/reportfilter.py to reportfilter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/__init__.py to __init__.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/prepareref_tb.py to prepareref_tb.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/getref.py to getref.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/aln2meta.py to aln2meta.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/prepareref.py to prepareref.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/refquery.py to refquery.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/expandflag.py to expandflag.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/pubmlstspecies.py to pubmlstspecies.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/flag.py to flag.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/pubmlstget.py to pubmlstget.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/run.py to run.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/version.py to version.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/test.py to test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/micplot.py to micplot.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tasks/summary.py to summary.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mic_plotter.py to mic_plotter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary_cluster_variant.py to summary_cluster_variant.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/clusters.py to clusters.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/vfdb_parser.py to vfdb_parser.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/pubmlst_getter.py to pubmlst_getter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/versions.py to versions.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/report_flag_expander.py to report_flag_expander.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/flag.py to flag.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ncbi_getter_test.py to ncbi_getter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/report_flag_expander_test.py to report_flag_expander_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/scaffold_graph_test.py to scaffold_graph_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/__init__.py to __init__.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/megares_zip_parser_test.py to megares_zip_parser_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/versions_test.py to versions_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/clusters_test.py to clusters_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mapping_test.py to mapping_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/external_progs_test.py to external_progs_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ref_preparer_test.py to ref_preparer_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_cluster_variant_test.py to summary_cluster_variant_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/sequence_variant_test.py to sequence_variant_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/card_record_test.py to card_record_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/vfdb_parser_test.py to vfdb_parser_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/link_test.py to link_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/assembly_variants_test.py to assembly_variants_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ref_genes_getter_test.py to ref_genes_getter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/assembly_test.py to assembly_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/bam_parse_test.py to bam_parse_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/tb_test.py to tb_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/cdhit_test.py to cdhit_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_cluster_test.py to summary_cluster_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/read_filter_test.py to read_filter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/read_store_test.py to read_store_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/pubmlst_ref_preparer_test.py to pubmlst_ref_preparer_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/samtools_variants_test.py to samtools_variants_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/test_refdata_query.py to test_refdata_query.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/common_test.py to common_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/megares_data_finder_test.py to megares_data_finder_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/cluster_test.py to cluster_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/histogram_test.py to histogram_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/flag_test.py to flag_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mic_plotter_test.py to mic_plotter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/faidx_test.py to faidx_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/pubmlst_getter_test.py to pubmlst_getter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_sample_test.py to summary_sample_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mlst_reporter_test.py to mlst_reporter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/reference_data_test.py to reference_data_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/sequence_metadata_test.py to sequence_metadata_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/report_filter_test.py to report_filter_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/aln_to_metadata_test.py to aln_to_metadata_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/assembly_compare_test.py to assembly_compare_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/summary_test.py to summary_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/mlst_profile_test.py to mlst_profile_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/tests/ref_seq_chooser_test.py to ref_seq_chooser_test.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/assembly_compare.py to assembly_compare.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/reference_data.py to reference_data.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/sequence_metadata.py to sequence_metadata.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/cluster.py to cluster.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/link.py to link.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/bam_parse.py to bam_parse.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/faidx.py to faidx.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/card_record.py to card_record.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/pubmlst_ref_preparer.py to pubmlst_ref_preparer.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mlst_reporter.py to mlst_reporter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/samtools_variants.py to samtools_variants.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/scaffold_graph.py to scaffold_graph.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/cdhit.py to cdhit.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/histogram.py to histogram.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/summary.py to summary.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/sequence_variant.py to sequence_variant.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/assembly.py to assembly.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/aln_to_metadata.py to aln_to_metadata.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/ref_genes_getter.py to ref_genes_getter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/read_store.py to read_store.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/report_filter.py to report_filter.cpython-310.pyc byte-compiling /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba/mapping.py to mapping.cpython-310.pyc running install_egg_info running egg_info creating ariba.egg-info writing ariba.egg-info/PKG-INFO writing dependency_links to ariba.egg-info/dependency_links.txt writing requirements to ariba.egg-info/requires.txt writing top-level names to ariba.egg-info/top_level.txt writing manifest file 'ariba.egg-info/SOURCES.txt' reading manifest file 'ariba.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '*.h' under directory 'third_party' adding license file 'LICENSE' adding license file 'AUTHORS' writing manifest file 'ariba.egg-info/SOURCES.txt' Copying ariba.egg-info to /<>/debian/ariba/usr/lib/python3.10/dist-packages/ariba-2.14.6.egg-info Skipping SOURCES.txt running install_scripts creating /<>/debian/ariba/usr/bin copying build/scripts-3.10/ariba -> /<>/debian/ariba/usr/bin changing mode of /<>/debian/ariba/usr/bin/ariba to 755 dh_installdocs -a -O--buildsystem=pybuild dh_installchangelogs -a -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/<>' mkdir -p /<>/debian/man asciidoctor -a docdate='' -b manpage -o /<>/debian/man/ariba.1 /<>/debian/ariba.1.adoc dh_installman -- make[1]: Leaving directory '/<>' dh_python3 -a -O--buildsystem=pybuild dh_installsystemduser -a -O--buildsystem=pybuild dh_perl -a -O--buildsystem=pybuild dh_link -a -O--buildsystem=pybuild dh_strip_nondeterminism -a -O--buildsystem=pybuild dh_compress -a -O--buildsystem=pybuild dh_fixperms -a -O--buildsystem=pybuild dh_missing -a -O--buildsystem=pybuild dh_dwz -a -O--buildsystem=pybuild dh_strip -a -O--buildsystem=pybuild debugedit: debian/ariba/usr/lib/python3/dist-packages/minimap_ariba.cpython-310-aarch64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 1fc1214a9dc257ebf664fbbbcd45288a05053253 debugedit: debian/ariba/usr/lib/python3/dist-packages/fermilite_ariba.cpython-310-aarch64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 bc94afdd11b48fa9ab95e8037fb60cab98211a6e debugedit: debian/ariba/usr/lib/python3/dist-packages/vcfcall_ariba.cpython-310-aarch64-linux-gnu.so: Unknown DWARF DW_FORM_0x1f20 45b940352b0ff28f6d4d59ad1547b62090b79419 dh_makeshlibs -a -O--buildsystem=pybuild dh_shlibdeps -a -O--buildsystem=pybuild dh_installdeb -a -O--buildsystem=pybuild dh_gencontrol -a -O--buildsystem=pybuild dpkg-gencontrol: warning: package ariba: substitution variable ${python3:Versions} unused, but is defined dpkg-gencontrol: warning: package ariba: substitution variable ${python3:Versions} unused, but is defined dh_md5sums -a -O--buildsystem=pybuild dh_builddeb -a -O--buildsystem=pybuild INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing ariba (in debian/ariba); do_strip: , oemstrip: pkgstriptranslations: processing ariba-dbgsym (in debian/.debhelper/ariba/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/ariba/DEBIAN/control, package ariba, directory debian/ariba pkgstripfiles: Truncating usr/share/doc/ariba/changelog.Debian.gz to topmost ten records pkgstripfiles: processing control file: debian/.debhelper/ariba/dbgsym-root/DEBIAN/control, package ariba-dbgsym, directory debian/.debhelper/ariba/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package ariba ... dpkg-deb: building package 'ariba-dbgsym' in 'debian/.debhelper/scratch-space/build-ariba/ariba-dbgsym_2.14.6+ds-3build1_arm64.deb'. pkgstripfiles: No PNG files. dpkg-deb: building package 'ariba' in '../ariba_2.14.6+ds-3build1_arm64.deb'. Renaming ariba-dbgsym_2.14.6+ds-3build1_arm64.deb to ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb dpkg-genbuildinfo --build=any -O../ariba_2.14.6+ds-3build1_arm64.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../ariba_2.14.6+ds-3build1_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2022-03-17T10:27:49Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ ariba_2.14.6+ds-3build1_arm64.changes: -------------------------------------- Format: 1.8 Date: Wed, 16 Mar 2022 19:20:24 +0000 Source: ariba Binary: ariba Built-For-Profiles: noudeb Architecture: arm64 Version: 2.14.6+ds-3build1 Distribution: jammy-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Graham Inggs Description: ariba - Antibiotic Resistance Identification By Assembly Changes: ariba (2.14.6+ds-3build1) jammy; urgency=medium . * No-change rebuild with Python 3.10 only Checksums-Sha1: 1ede282d0202596b91bcdebda5ec4e7506c7de70 369148 ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb e305c29c84229dd8a6d3733658e0fcdce28bee50 11799 ariba_2.14.6+ds-3build1_arm64.buildinfo 16129897215864525e7a4dcc26c4843d20661120 2041952 ariba_2.14.6+ds-3build1_arm64.deb Checksums-Sha256: 0320c87e9514e5bc42a59bfab46e05fd47adbaa3206cac9d4e493b2e8c00a17b 369148 ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb 071f7cc6fee3546e11550955834eaaa6451d903b9d1eced21360b29797e8ce26 11799 ariba_2.14.6+ds-3build1_arm64.buildinfo 803b53b427ed0f9773845c4f82bafa59c4710bc3974fdb098b9d3e4bbb3ad26f 2041952 ariba_2.14.6+ds-3build1_arm64.deb Files: d59e0436daf599e100241c5895f2df46 369148 debug optional ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb 7bec7d0c1afe06916b9e482cbd00cf8b 11799 science optional ariba_2.14.6+ds-3build1_arm64.buildinfo 403f33e359d04d2444610de4c10eae0a 2041952 science optional ariba_2.14.6+ds-3build1_arm64.deb /<>/ariba_2.14.6+ds-3build1_arm64.changes.new could not be renamed to /<>/ariba_2.14.6+ds-3build1_arm64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: ariba Binary: ariba ariba-dbgsym Architecture: arm64 Version: 2.14.6+ds-3build1 Checksums-Md5: d59e0436daf599e100241c5895f2df46 369148 ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb 403f33e359d04d2444610de4c10eae0a 2041952 ariba_2.14.6+ds-3build1_arm64.deb Checksums-Sha1: 1ede282d0202596b91bcdebda5ec4e7506c7de70 369148 ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb 16129897215864525e7a4dcc26c4843d20661120 2041952 ariba_2.14.6+ds-3build1_arm64.deb Checksums-Sha256: 0320c87e9514e5bc42a59bfab46e05fd47adbaa3206cac9d4e493b2e8c00a17b 369148 ariba-dbgsym_2.14.6+ds-3build1_arm64.ddeb 803b53b427ed0f9773845c4f82bafa59c4710bc3974fdb098b9d3e4bbb3ad26f 2041952 ariba_2.14.6+ds-3build1_arm64.deb Build-Origin: Ubuntu Build-Architecture: arm64 Build-Date: Thu, 17 Mar 2022 10:27:48 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: asciidoctor (= 2.0.16-2), autoconf (= 2.71-2), automake (= 1:1.16.5-1.1ubuntu4), autopoint (= 0.21-4ubuntu3), autotools-dev (= 20220109.1), base-files (= 12ubuntu2), base-passwd (= 3.5.52), bash (= 5.1-6ubuntu1), binutils (= 2.38-3ubuntu1), binutils-aarch64-linux-gnu (= 2.38-3ubuntu1), binutils-common (= 2.38-3ubuntu1), blt (= 2.5.3+dfsg-4.1build1), bowtie2 (= 2.4.5-1), bsdextrautils (= 2.37.2-4ubuntu3), bsdutils (= 1:2.37.2-4ubuntu3), build-essential (= 12.9ubuntu2), bzip2 (= 1.0.8-5), ca-certificates (= 20211016), 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3.1.3+dfsg-1build2), python3-matplotlib (= 3.5.1-2build1), python3-minimal (= 3.10.1-0ubuntu2), python3-more-itertools (= 8.10.0-2), python3-mpmath (= 1.2.1-2), python3-numpy (= 1:1.21.5-1), python3-packaging (= 21.3-1), python3-pil (= 9.0.1-1), python3-pil.imagetk (= 9.0.1-1), python3-pkg-resources (= 59.6.0-1.2), python3-pluggy (= 0.13.0-7.1), python3-ply (= 3.11-5), python3-py (= 1.10.0-1), python3-pymummer (= 0.11.0-2), python3-pyparsing (= 2.4.7-1), python3-pysam (= 0.17.0+ds-2build1), python3-pytest (= 6.2.5-1ubuntu2), python3-pythran (= 0.10.0+ds2-1), python3-renderpm (= 3.6.8-1), python3-reportlab (= 3.6.8-1), python3-reportlab-accel (= 3.6.8-1), python3-scipy (= 1.8.0-1exp2), python3-setuptools (= 59.6.0-1.2), python3-six (= 1.16.0-3), python3-soupsieve (= 2.3.1-1), python3-sympy (= 1.9-1), python3-tk (= 3.10.3-0ubuntu2), python3-toml (= 0.10.2-1), python3-tz (= 2021.3-1), python3-ufolib2 (= 0.13.1+dfsg1-1), python3-unicodedata2 (= 14.0.0+ds-8), python3-zipp (= 1.0.0-3), 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LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1647458424" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ ariba_2.14.6+ds-3build1_arm64.deb --------------------------------- new Debian package, version 2.0. size 2041952 bytes: control archive=17772 bytes. 1153 bytes, 18 lines control 91140 bytes, 756 lines md5sums 247 bytes, 12 lines * postinst #!/bin/sh 396 bytes, 12 lines * prerm #!/bin/sh Package: ariba Version: 2.14.6+ds-3build1 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 20419 Depends: fastaq (>= 3.12.0), python3 (<< 3.11), python3 (>= 3.10~), python3-biopython, python3-bs4, python3-dendropy, python3-matplotlib, python3-pymummer (>= 0.10.2), python3-pysam (>= 0.9.1), python3:any, libc6 (>= 2.17), libfml0 (>= 0.1-4~), libgcc-s1 (>= 3.3.1), libminimap0 (>= 0.2), libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4), bowtie2 (>= 2.1.0), cd-hit, mash, mummer, python3-tk Suggests: spades Section: science Priority: optional Homepage: https://github.com/sanger-pathogens/ariba Description: Antibiotic Resistance Identification By Assembly ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes. drwxr-xr-x root/root 0 2022-03-16 19:20 ./ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/bin/ -rwxr-xr-x root/root 26193 2022-03-16 19:20 ./usr/bin/ariba drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/python3/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/ -rw-r--r-- root/root 552 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/PKG-INFO -rw-r--r-- root/root 1 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/dependency_links.txt -rw-r--r-- root/root 0 2022-03-16 19:20 ./usr/lib/python3/dist-packages/ariba-2.14.6.egg-info/requires.txt 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Build-Space: 78012 Build-Time: 324 Distribution: jammy-proposed Host Architecture: arm64 Install-Time: 157 Job: ariba_2.14.6+ds-3build1.dsc Machine Architecture: arm64 Package: ariba Package-Time: 484 Source-Version: 2.14.6+ds-3build1 Space: 78012 Status: successful Version: 2.14.6+ds-3build1 -------------------------------------------------------------------------------- Finished at 2022-03-17T10:27:49Z Build needed 00:08:04, 78012k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=jammy --arch=arm64 PACKAGEBUILD-23248860 Scanning for processes to kill in build PACKAGEBUILD-23248860